Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000851.1 Hibiscus syriacus cultivar Beakdansim tig00001644_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 7304151
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 28 of 31
Found at i:6565566 original size:31 final size:31
Alignment explanation
Indices: 6565531--6565600 Score: 131
Period size: 31 Copynumber: 2.3 Consensus size: 31
6565521 TTCTATTTTG
6565531 ATCTTCAAATTCTGTTTTTGTTTCGTTTTCA
1 ATCTTCAAATTCTGTTTTTGTTTCGTTTTCA
6565562 ATCTTCAAATTCTGTTTTTGTTTCGTTTTCA
1 ATCTTCAAATTCTGTTTTTGTTTCGTTTTCA
*
6565593 ATCCTCAA
1 ATCTTCAA
6565601 TAAGAATCTC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.19, C:0.19, G:0.09, T:0.54
Consensus pattern (31 bp):
ATCTTCAAATTCTGTTTTTGTTTCGTTTTCA
Found at i:6570567 original size:12 final size:12
Alignment explanation
Indices: 6570552--6570577 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6570542 AAAGGAAGTA
6570552 AGAAAGAGAGAG
1 AGAAAGAGAGAG
6570564 AGAAAGAGAGAG
1 AGAAAGAGAGAG
6570576 AG
1 AG
6570578 TACATCGACG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (12 bp):
AGAAAGAGAGAG
Found at i:6571250 original size:2 final size:2
Alignment explanation
Indices: 6571243--6571267 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6571233 AAATTATAAT
6571243 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
6571268 TGTTTTGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6580868 original size:64 final size:64
Alignment explanation
Indices: 6580795--6580957 Score: 154
Period size: 64 Copynumber: 2.5 Consensus size: 64
6580785 ATTATTTGAA
* ***
6580795 GGTGTATCGATGCACAGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAAAACATCGAATGCAAT
1 GGTGCATCGATGCACAGGTAGTGCATCGATGCATC-CCAGTAATAA-AAAAACATCGAATGCAAT
6580858 T
64 T
* * * * *
6580859 GGTGCATCGATGCATAAGGCA-TGCATCGATGCATCCCAGTAATAAACAAACATCGAATGTATTT
1 GGTGCATCGATGCA-CAGGTAGTGCATCGATGCATCCCAGTAATAAAAAAACATCGAATGCAATT
* * *
6580923 TGTGCA-CAGATGCACAAGTAGTGCATCGATTCATC
1 GGTGCATC-GATGCACAGGTAGTGCATCGATGCATC
6580958 GGTAGGGAAT
Statistics
Matches: 80, Mismatches: 14, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
63 4 0.05
64 69 0.86
65 7 0.09
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (64 bp):
GGTGCATCGATGCACAGGTAGTGCATCGATGCATCCCAGTAATAAAAAAACATCGAATGCAATT
Found at i:6581943 original size:103 final size:103
Alignment explanation
Indices: 6581718--6581935 Score: 427
Period size: 103 Copynumber: 2.1 Consensus size: 103
6581708 GTCGAGGGTC
6581718 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
6581783 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
*
6581821 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAT
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
6581886 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
6581924 TATGTGGTCCTT
1 TATGTGGTCCTT
6581936 ATGGACATTA
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 114 1.00
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:6582018 original size:23 final size:23
Alignment explanation
Indices: 6581942--6582019 Score: 86
Period size: 23 Copynumber: 3.3 Consensus size: 23
6581932 CCTTATGGAC
*
6581942 ATTATTATATGGCACTAT-GGTGCA
1 ATTA-TATGTGGCACT-TCGGTGCA
* * * *
6581966 ATTCTACGCGGCACTCCGGTGCA
1 ATTATATGTGGCACTTCGGTGCA
6581989 ATTATATGTGGCACTTCGGTGCA
1 ATTATATGTGGCACTTCGGTGCA
6582012 ATTATATG
1 ATTATATG
6582020 AGCTGTGGTG
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
23 41 0.93
24 3 0.07
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.33
Consensus pattern (23 bp):
ATTATATGTGGCACTTCGGTGCA
Found at i:6586332 original size:64 final size:64
Alignment explanation
Indices: 6586259--6586421 Score: 152
Period size: 64 Copynumber: 2.5 Consensus size: 64
6586249 ATTGTTTGAA
* ***
6586259 GGTGTATCGATGCACAGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAAAACATCAAATGCAAT
1 GGTGCATCGATGCACAGGTAGTGCATCGATGCATC-CCAGTAATAA-AAAAACATCAAATGCAAT
6586322 T
64 T
* * * * * *
6586323 GGTGCATCGATGCATAAGGCA-TGCATCGATGCATCCCAGTAATAAACAAACATCGAATGTATTT
1 GGTGCATCGATGCA-CAGGTAGTGCATCGATGCATCCCAGTAATAAAAAAACATCAAATGCAATT
* * * *
6586387 TGTGCACCGATGCACAAGTAGTGCATCGATTCATC
1 GGTGCATCGATGCACAGGTAGTGCATCGATGCATC
6586422 GGTAGGGAAT
Statistics
Matches: 79, Mismatches: 16, Indels: 8
0.77 0.16 0.08
Matches are distributed among these distances:
63 3 0.04
64 69 0.87
65 7 0.09
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.26
Consensus pattern (64 bp):
GGTGCATCGATGCACAGGTAGTGCATCGATGCATCCCAGTAATAAAAAAACATCAAATGCAATT
Found at i:6587390 original size:103 final size:103
Alignment explanation
Indices: 6587207--6587432 Score: 382
Period size: 103 Copynumber: 2.2 Consensus size: 103
6587197 GTCGAGGGTC
6587207 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
6587272 TTGATCCTTGGCATATGTGTATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
* * * *
6587310 TATGTTGTCCTTCGGGATATATATGTATTCTTTGGAATATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
6587375 TTGATCCTTGTCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
6587413 TATGTGGTCCTT-ATGGACAT
1 TATGTGGTCCTTCA-GGACAT
6587433 TATTATATGG
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
103 113 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (103 bp):
TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:6587467 original size:23 final size:23
Alignment explanation
Indices: 6587434--6587508 Score: 100
Period size: 23 Copynumber: 3.3 Consensus size: 23
6587424 TATGGACATT
6587434 ATTATAT--GGCACTACGGTGCA
1 ATTATATGCGGCACTACGGTGCA
* *
6587455 ATTCTATGCGGCACTCCGGTGCA
1 ATTATATGCGGCACTACGGTGCA
* *
6587478 ATTATATGTGGCACTTCGGTGCA
1 ATTATATGCGGCACTACGGTGCA
6587501 ATTATATG
1 ATTATATG
6587509 AGATGTGGTG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 6 0.13
23 41 0.87
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (23 bp):
ATTATATGCGGCACTACGGTGCA
Found at i:6590180 original size:19 final size:19
Alignment explanation
Indices: 6590144--6590181 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
6590134 TCTATCATTT
*
6590144 TTTAAATATTTTTATTTAA
1 TTTAAATATTATTATTTAA
6590163 TTTAAATAATTATT-TTTAA
1 TTTAAAT-ATTATTATTTAA
6590182 AAAAATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTAAATATTATTATTTAA
Found at i:6596015 original size:59 final size:59
Alignment explanation
Indices: 6595942--6596077 Score: 150
Period size: 59 Copynumber: 2.3 Consensus size: 59
6595932 ACACATAACT
* * * * * * *
6595942 ATTTTATAACTTTTAATAG-TCG-AGTGACTCGATAATTAACATTCTATAATTAAATTATC
1 ATTTTATAATTTTTAATAGAT-GAAAT-ACTCAATAAGTAACATTATATAATGAAATGATC
* * *
6596001 ATTTTGTAATTTTTAATAGATGAAATACTCAATAAGTAACGTTATATAGTGAAATGATC
1 ATTTTATAATTTTTAATAGATGAAATACTCAATAAGTAACATTATATAATGAAATGATC
6596060 ATTTTATAATTTTTAATA
1 ATTTTATAATTTTTAATA
6596078 AATAAGAGAT
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
59 61 0.95
60 3 0.05
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.43
Consensus pattern (59 bp):
ATTTTATAATTTTTAATAGATGAAATACTCAATAAGTAACATTATATAATGAAATGATC
Found at i:6597770 original size:36 final size:34
Alignment explanation
Indices: 6597715--6597793 Score: 101
Period size: 34 Copynumber: 2.4 Consensus size: 34
6597705 TTTAAATAGT
*
6597715 TATTATTTTTTATATT--AAT-ATATTTATGTAAA
1 TATTATTTTTT-TATTAAAATAATATTTATATAAA
*
6597747 TATTATTTTTTTATTAAAATAATATTTATATAAT
1 TATTATTTTTTTATTAAAATAATATTTATATAAA
*
6597781 TATTATTTATTTA
1 TATTATTTTTTTA
6597794 GAATTATTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
31 4 0.10
32 11 0.27
33 3 0.07
34 23 0.56
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (34 bp):
TATTATTTTTTTATTAAAATAATATTTATATAAA
Found at i:6599753 original size:12 final size:13
Alignment explanation
Indices: 6599720--6599757 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
6599710 AAATACATAA
6599720 ATATATTTAATAT
1 ATATATTTAATAT
*
6599733 ATTTATTTAATAT
1 ATATATTTAATAT
6599746 A-ATATTTAATAT
1 ATATATTTAATAT
6599758 TATTAGTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
ATATATTTAATAT
Found at i:6600617 original size:17 final size:19
Alignment explanation
Indices: 6600542--6600623 Score: 95
Period size: 18 Copynumber: 4.6 Consensus size: 19
6600532 TGTTTTTGAG
6600542 GGAATTGA-AATCTGTGAA
1 GGAATTGAGAATCTGTGAA
* *
6600560 TGAATT-AGAATATGTGAA
1 GGAATTGAGAATCTGTGAA
6600578 GGAATT-AGAATCTGTGAA
1 GGAATTGAGAATCTGTGAA
*
6600596 GGAATTGA-AATCTGT-CA
1 GGAATTGAGAATCTGTGAA
6600613 GGAATTG-GAAT
1 GGAATTGAGAAT
6600624 TCAATTCCAT
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
17 12 0.21
18 43 0.77
19 1 0.02
ACGTcount: A:0.39, C:0.05, G:0.27, T:0.29
Consensus pattern (19 bp):
GGAATTGAGAATCTGTGAA
Found at i:6601253 original size:252 final size:256
Alignment explanation
Indices: 6600941--6601452 Score: 856
Period size: 252 Copynumber: 2.0 Consensus size: 256
6600931 ATCCGAGACT
*
6600941 CGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAACTCGACCCGA
1 CGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATACGAATTAGAAACTCGACCCGA
*
6601006 AATAATAAAAAAA-TATTTTTATTCAATAAAAACAATAACTTAATTGAAAAAAAATTATATATAG
66 AATAATAAAAAAATTATTTTTATTCAATAAAAACAATAACTTAATTG-AAAAAAATTATATAGAG
*
6601070 AGAGGTATTATTGTAATTATTCATAAATATATAAGGTAAAATTATATAT-TTTTTGGGTCGGGTC
130 AGAGGTATTATTGTAATTATTCATAAATATATAAGGTAAAATTATATATATTTTCGGGTCGGGTC
* *
6601134 GGGTATTTTTCACCTTAAACC-CAA-AC-CCGACCCGAATATCACACTTAAAAAAAATCGACC
195 GGGTATTTTTCACCCTAAACCTCAACACACCGACCCGAATATCACACTT-AAAAAAACCGACC
6601194 CGACCCGACCAAAATAAAGTTTCA-CCGACCCGACCCGAATATACGAATTAGAAACTCGACCCGA
1 CGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATACGAATTAGAAACTCGACCCGA
* *
6601258 AATAATAAAAAAATTATTTTTATTCAATAAAAACAGTGACTTAATTGAAAAAAATTATATAGAGA
66 AATAATAAAAAAATTATTTTTATTCAATAAAAACAATAACTTAATTGAAAAAAATTATATAGAGA
* *
6601323 GGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATTTTCGGGTCGGGTCG
131 GAGGTATTATTGTAATTATTCATAAATATATAAGGTAAAATTATATATATTTTCGGGTCGGGTCG
* *
6601388 GGTATTTTTCACCCTAAACCTGAACTCGACCGACCCGAATATCACACTTAAAAAAACCGACC
196 GGTATTTTTCACCCTAAACCTCAACAC-ACCGACCCGAATATCACACTTAAAAAAACCGACC
6601450 CGA
1 CGA
6601453 TCCAAATATA
Statistics
Matches: 242, Mismatches: 11, Indels: 9
0.92 0.04 0.03
Matches are distributed among these distances:
252 115 0.48
253 89 0.37
254 2 0.01
255 1 0.00
256 15 0.06
257 20 0.08
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.27
Consensus pattern (256 bp):
CGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATACGAATTAGAAACTCGACCCGA
AATAATAAAAAAATTATTTTTATTCAATAAAAACAATAACTTAATTGAAAAAAATTATATAGAGA
GAGGTATTATTGTAATTATTCATAAATATATAAGGTAAAATTATATATATTTTCGGGTCGGGTCG
GGTATTTTTCACCCTAAACCTCAACACACCGACCCGAATATCACACTTAAAAAAACCGACC
Found at i:6602201 original size:39 final size:39
Alignment explanation
Indices: 6602158--6602235 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
6602148 GGTGACACGT
* *
6602158 GTCCCTTTAAATTGGTGTCGAAATGAGTTACGAAGGTTA
1 GTCCCCTTAAATTGGTGTCAAAATGAGTTACGAAGGTTA
*
6602197 GTCCCCTTAAATTGGTGTCAAAATGAGTTATGAAGGTTA
1 GTCCCCTTAAATTGGTGTCAAAATGAGTTACGAAGGTTA
6602236 AACCTTCAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.33
Consensus pattern (39 bp):
GTCCCCTTAAATTGGTGTCAAAATGAGTTACGAAGGTTA
Found at i:6602579 original size:30 final size:30
Alignment explanation
Indices: 6602474--6602592 Score: 105
Period size: 30 Copynumber: 3.9 Consensus size: 30
6602464 AATTATAACC
*
6602474 AAGATAAAAATAAAATAT-TTTAAAAAAAATT
1 AAGATAAAAATAAAATATATTT--AATAAATT
** ** *
6602505 AAGATAAAAATAACTTATATTTTTTAAGTT
1 AAGATAAAAATAAAATATATTTAATAAATT
* * * * *
6602535 CAGATTATAATAAAATATACTTAATAATTT
1 AAGATAAAAATAAAATATATTTAATAAATT
*
6602565 AAGATAAAAATAAAATATATTTTATAAA
1 AAGATAAAAATAAAATATATTTAATAAA
6602593 ATTGAGCCCC
Statistics
Matches: 66, Mismatches: 21, Indels: 3
0.73 0.23 0.03
Matches are distributed among these distances:
30 47 0.71
31 16 0.24
32 3 0.05
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.36
Consensus pattern (30 bp):
AAGATAAAAATAAAATATATTTAATAAATT
Found at i:6602618 original size:129 final size:129
Alignment explanation
Indices: 6602485--6602718 Score: 285
Period size: 129 Copynumber: 1.8 Consensus size: 129
6602475 AGATAAAAAT
* * * * * * *
6602485 AAAATATTTTAAAAAAAATTAAGATAAAAATAAC-TTATATTTTTTAAGTTCAGATTATAATAAA
1 AAAATATTTT-AAAAAAATTAAAATAAAAATAACAATATATTGTTTAAATTAAGATAAGAATAAA
*
6602549 ATATACT-TA-ATAATTTAAGATAAAAATAAAATATATTTTATAAAATTGAGCCCCATTATGATA
65 ATATA-TATATATAAGTTAA-ATAAAAATAAAATATATTTTATAAAATTGAGCCCCATTATGATA
6602612 AA
128 AA
* * * *
6602614 AAAATGTTTTTAAAAAGTTAAAATAAAAATAACAATATATTGTTTAAATTAAGATAAGATTAAAA
1 AAAATATTTTAAAAAAATTAAAATAAAAATAACAATATATTGTTTAAATTAAGATAAGAATAAAA
* *
6602679 TATATATATTTTAAGTTAAATAAAAATAATATATATTTTA
66 TATATATA-TATAAGTTAAATAAAAATAAAATATATTTTA
6602719 AAGTTAAATA
Statistics
Matches: 87, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
128 21 0.24
129 39 0.45
130 20 0.23
131 7 0.08
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (129 bp):
AAAATATTTTAAAAAAATTAAAATAAAAATAACAATATATTGTTTAAATTAAGATAAGAATAAAA
TATATATATATAAGTTAAATAAAAATAAAATATATTTTATAAAATTGAGCCCCATTATGATAAA
Found at i:6602692 original size:32 final size:27
Alignment explanation
Indices: 6602647--6602728 Score: 76
Period size: 32 Copynumber: 2.8 Consensus size: 27
6602637 TAAAAATAAC
6602647 AATATAT-TGTTTAAATTAAGATAAGATTAAA
1 AATATATAT-TTTAAATTAA-ATAA-A--AAA
* *
6602678 ATATATATATTTTAAGTTAAATAAAAAT
1 A-ATATATATTTTAAATTAAATAAAAAA
6602706 AATATATATTTTAAAGTTAAATA
1 AATATATATTTTAAA-TTAAATA
6602729 TTAATATAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
27 13 0.29
28 10 0.22
30 1 0.02
31 5 0.11
32 15 0.33
33 1 0.02
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.41
Consensus pattern (27 bp):
AATATATATTTTAAATTAAATAAAAAA
Found at i:6602710 original size:27 final size:29
Alignment explanation
Indices: 6602674--6602747 Score: 100
Period size: 30 Copynumber: 2.6 Consensus size: 29
6602664 AAGATAAGAT
6602674 TAAAAT-ATATATATTTT-AAGTTAAATA
1 TAAAATAATATATATTTTAAAGTTAAATA
6602701 -AAAATAATATATATTTTAAAGTTAAATA
1 TAAAATAATATATATTTTAAAGTTAAATA
* *
6602729 TTAATATAAAATATATTTT
1 -TAAAATAATATATATTTT
6602748 TTGAAAGTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
26 5 0.12
27 11 0.27
28 10 0.24
30 15 0.37
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (29 bp):
TAAAATAATATATATTTTAAAGTTAAATA
Found at i:6602743 original size:59 final size:63
Alignment explanation
Indices: 6602627--6602759 Score: 143
Period size: 59 Copynumber: 2.1 Consensus size: 63
6602617 ATGTTTTTAA
*
6602627 AAAGTTAAAATAAAAATAACAATATATTGTTTAAATTAAGATAAGATTAAAATATATATATTTT
1 AAAGTT-AAATAAAAATAACAATATATTGTTTAAATTAAGATAAGAATAAAATATATATATTTT
* ** *
6602691 -AAGTTAAATAAAAATAA-TATATA-T-TTTAAAGTTAA-ATATTAATATAAA-ATATATTTTTT
1 AAAGTTAAATAAAAATAACAATATATTGTTTAAA-TTAAGATAAGAATA-AAATATATATATTTT
6602750 GAAAGTTAAA
1 -AAAGTTAAA
6602760 ATTTGAATTT
Statistics
Matches: 60, Mismatches: 5, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
59 22 0.37
60 8 0.13
61 13 0.22
62 12 0.20
63 5 0.08
ACGTcount: A:0.54, C:0.01, G:0.06, T:0.39
Consensus pattern (63 bp):
AAAGTTAAATAAAAATAACAATATATTGTTTAAATTAAGATAAGAATAAAATATATATATTTT
Found at i:6602756 original size:61 final size:63
Alignment explanation
Indices: 6602627--6602759 Score: 147
Period size: 61 Copynumber: 2.1 Consensus size: 63
6602617 ATGTTTTTAA
6602627 AAAGTTAAAATAAAAATAACAATATATTGTTTAAATTAAGATAAGATTAAAATATATATATTTT
1 AAAGTT-AAATAAAAATAACAATATATTGTTTAAATTAAGATAAGATTAAAATATATATATTTT
*
6602691 -AAGTTAAATAAAAATAA-TATATA-T-TTTAAAGTTAA-ATATTA-ATATAAAATATAT-T-TT
1 AAAGTTAAATAAAAATAACAATATATTGTTTAAA-TTAAGATA--AGAT-TAAAATATATATATT
6602748 TT
62 TT
6602750 GAAAGTTAAA
1 -AAAGTTAAA
6602760 ATTTGAATTT
Statistics
Matches: 62, Mismatches: 1, Indels: 15
0.79 0.01 0.19
Matches are distributed among these distances:
59 13 0.21
60 8 0.13
61 24 0.39
62 12 0.19
63 5 0.08
ACGTcount: A:0.54, C:0.01, G:0.06, T:0.39
Consensus pattern (63 bp):
AAAGTTAAATAAAAATAACAATATATTGTTTAAATTAAGATAAGATTAAAATATATATATTTT
Found at i:6602781 original size:18 final size:18
Alignment explanation
Indices: 6602752--6602794 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
6602742 TATTTTTTGA
6602752 AAGTTAAAATTTGAATTT
1 AAGTTAAAATTTGAATTT
* * *
6602770 AATTTAATATTTGAGTTT
1 AAGTTAAAATTTGAATTT
6602788 AAGTTAA
1 AAGTTAA
6602795 GATATATATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.47
Consensus pattern (18 bp):
AAGTTAAAATTTGAATTT
Found at i:6609653 original size:32 final size:32
Alignment explanation
Indices: 6609585--6609662 Score: 86
Period size: 32 Copynumber: 2.4 Consensus size: 32
6609575 CATTGGTAGG
* * * *
6609585 AGCCAACCTAAGGGAGTACCTAGGGGCCTTAG
1 AGCCTACCCAAGGGAGTACCTAGGGGCCTAAA
*
6609617 AGCCTGCCCAAGGGAGTACCTTA-GGGCCTAAA
1 AGCCTACCCAAGGGAGTACC-TAGGGGCCTAAA
*
6609649 AGCCTACCTAAGGG
1 AGCCTACCCAAGGG
6609663 CCACCTTAAG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
32 36 0.95
33 2 0.05
ACGTcount: A:0.28, C:0.27, G:0.29, T:0.15
Consensus pattern (32 bp):
AGCCTACCCAAGGGAGTACCTAGGGGCCTAAA
Found at i:6611686 original size:30 final size:30
Alignment explanation
Indices: 6611650--6611709 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
6611640 TTTGGTTAAG
* **
6611650 TTTAGGGCTTTATTTGAAAAGATTGAAAAT
1 TTTAGGGCGTTAAATGAAAAGATTGAAAAT
* *
6611680 TTTAGGGGGTTAAATGAAAAGTTTGAAAAT
1 TTTAGGGCGTTAAATGAAAAGATTGAAAAT
6611710 GTGATTATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.37
Consensus pattern (30 bp):
TTTAGGGCGTTAAATGAAAAGATTGAAAAT
Found at i:6612873 original size:14 final size:14
Alignment explanation
Indices: 6612854--6612881 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6612844 TGTTTTGACT
6612854 GGTTTTAAAGATGA
1 GGTTTTAAAGATGA
6612868 GGTTTTAAAGATGA
1 GGTTTTAAAGATGA
6612882 TGAAATGGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.29, T:0.36
Consensus pattern (14 bp):
GGTTTTAAAGATGA
Found at i:6613758 original size:76 final size:76
Alignment explanation
Indices: 6613621--6613843 Score: 297
Period size: 76 Copynumber: 2.9 Consensus size: 76
6613611 TACGATTTGT
* * * * *
6613621 AATGTTAATATTTTTATTAGT-AAAGTGAATTGTACCTAAGAATATCATGGTTCACTAAGAAATA
1 AATGTTAATATTTTTATTAATAAAAGTG--TTGCACCCAAGAATGTCATGGTTCGCTAAGAAATA
*
6613685 GGTTGCGATCT-G
64 GGTTGCGATATGG
*
6613697 AAGTGTTAATATTTTTATTAATAAAAGTGTTGCGCCCAAGAATGTCATGGTTCGCTAAGAAATAG
1 AA-TGTTAATATTTTTATTAATAAAAGTGTTGCACCCAAGAATGTCATGGTTCGCTAAGAAATAG
6613762 GTTGCGATATGG
65 GTTGCGATATGG
* * * *
6613774 AATGTTGACATTTTTATTAATAAAATGGGTTGCACCCAAGAATGTTATGGTTCGCTAAGAAATAG
1 AATGTTAATATTTTTATTAATAAAA-GTGTTGCACCCAAGAATGTCATGGTTCGCTAAGAAATAG
6613839 GTTGC
65 GTTGC
6613844 ACCTAAGAAT
Statistics
Matches: 131, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
76 63 0.48
77 62 0.47
78 6 0.05
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.35
Consensus pattern (76 bp):
AATGTTAATATTTTTATTAATAAAAGTGTTGCACCCAAGAATGTCATGGTTCGCTAAGAAATAGG
TTGCGATATGG
Found at i:6613838 original size:77 final size:76
Alignment explanation
Indices: 6613621--6613843 Score: 295
Period size: 77 Copynumber: 2.9 Consensus size: 76
6613611 TACGATTTGT
* * * * * * *
6613621 AATGTTAATATTTTTATTAGTAAAGTGAATTGTACCTAAGAATATCATGGTTCACTAAGAAATAG
1 AATGTTAATATTTTTATTAATAAAATGAGTTGCACCCAAGAATGTCATGGTTCGCTAAGAAATAG
*
6613686 GTTGCGATCTG
66 GTTGCGATATG
* *
6613697 AAGTGTTAATATTTTTATTAATAAAA-GTGTTGCGCCCAAGAATGTCATGGTTCGCTAAGAAATA
1 AA-TGTTAATATTTTTATTAATAAAATGAGTTGCACCCAAGAATGTCATGGTTCGCTAAGAAATA
6613761 GGTTGCGATATGG
65 GGTTGCGATAT-G
* * * *
6613774 AATGTTGACATTTTTATTAATAAAATGGGTTGCACCCAAGAATGTTATGGTTCGCTAAGAAATAG
1 AATGTTAATATTTTTATTAATAAAATGAGTTGCACCCAAGAATGTCATGGTTCGCTAAGAAATAG
6613839 GTTGC
66 GTTGC
6613844 ACCTAAGAAT
Statistics
Matches: 129, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
76 64 0.50
77 65 0.50
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.35
Consensus pattern (76 bp):
AATGTTAATATTTTTATTAATAAAATGAGTTGCACCCAAGAATGTCATGGTTCGCTAAGAAATAG
GTTGCGATATG
Found at i:6613846 original size:37 final size:37
Alignment explanation
Indices: 6613796--6613874 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
6613786 TTTATTAATA
* * * * *
6613796 AAATGGGTTGCACCCAAGAATGTTATGGTTCGCTAAG
1 AAATAGGTTGCACCCAAGAATATCATAGTTCACTAAG
*
6613833 AAATAGGTTGCACCTAAGAATATCATAGTTCACTAAG
1 AAATAGGTTGCACCCAAGAATATCATAGTTCACTAAG
6613870 AAATA
1 AAATA
6613875 AGTTACGATT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (37 bp):
AAATAGGTTGCACCCAAGAATATCATAGTTCACTAAG
Found at i:6614145 original size:67 final size:70
Alignment explanation
Indices: 6614074--6614235 Score: 217
Period size: 67 Copynumber: 2.3 Consensus size: 70
6614064 TTCGAATTTA
*
6614074 AAAGTATGAATACTTTTGGAAAAATATCGACACTTTACAACCTTTTCATTTTCC-A-TTTTTT-A
1 AAAGTATGAATACTTTTGGAAAAATATCGACACTTTACAACATTTTCATTTTCCAATTTTTTTAA
6614136 ATTCG
66 ATTCG
* * *
6614141 AAAGTAT-AGATACTTTTGGAAAAATATCGATATTTTGCAACATTTTCATTTTCCATATTTTTTT
1 AAAGTATGA-ATACTTTTGGAAAAATATCGACACTTTACAACATTTTCATTTTCCA-A-TTTTTT
6614205 TAAATTCG
63 TAAATTCG
6614213 AAAGTATTG-ATACTTTTGGAAAA
1 AAAGTA-TGAATACTTTTGGAAAA
6614236 GGATCCATAC
Statistics
Matches: 83, Mismatches: 4, Indels: 11
0.85 0.04 0.11
Matches are distributed among these distances:
66 1 0.01
67 48 0.58
69 1 0.01
71 6 0.07
72 26 0.31
73 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (70 bp):
AAAGTATGAATACTTTTGGAAAAATATCGACACTTTACAACATTTTCATTTTCCAATTTTTTTAA
ATTCG
Found at i:6614681 original size:200 final size:200
Alignment explanation
Indices: 6614317--6614815 Score: 524
Period size: 200 Copynumber: 2.5 Consensus size: 200
6614307 TATCCGTTCT
* * * * *
6614317 TTTTTTTAAATTGTCAACCGTTTATATTATATGTTTGAAACCGTTTATATAATGAAAAAAATAAG
1 TTTTTTT-AATTGTCAACCATTTACA-T-TATGTTTGAAACCGTTTTTATTATG-AAAAAGTAAG
* * * *
6614382 ACAAAACAGATTTATAAGTTTAAAATTCTAGATTGCACCTTTTTTAAATTATCAATCGTTTATAT
62 ACAAAAAAG-TTTATAAGTTTAACATTCTAGGTTGCACCTTTTTTAAATTATCAATCGTTTAGAT
* * * ** **
6614447 TATATGTTTGAAACCCTTTTTATTATGAAAAAGTAAGATAAAACA-GATTTATAAGTTTAACTTT
126 TATATCTTTCAAACCCTTTTTATTATGAAAAAGTAAGACAAAACATG-TTTATAAGTACAACACT
* * **
6614511 CTATGTTGCGAC
190 ATAGGTAAC-AC
* * *
6614523 TTTTTTTAATTGTCAACCATTTAGATTATGTCTGAAACCGTTTTTATTATG-AAAAGTAGGACAA
1 TTTTTTTAATTGTCAACCATTTACATTATGTTTGAAACCGTTTTTATTATGAAAAAGTAAGACAA
* *
6614587 AATAAGTTTATAAGTTTAACATTCTAGGTTGC-GCTTCTTTT-AATTATCAATCGTTTAGGTTAT
66 AA-AAGTTTATAAGTTTAACATTCTAGGTTGCACCTT-TTTTAAATTATCAATCGTTTAGATTAT
** **
6614650 ATCTTTCAAACTGTTTTTATTATTCAAAAGTAAGACAAAACATGTTTATAAGTACAACACTATAG
129 ATCTTTCAAACCCTTTTTATTATGAAAAAGTAAGACAAAACATGTTTATAAGTACAACACTATAG
6614715 GTAACAC
194 GTAACAC
* * *
6614722 TTTTTTTAATTGTCAA-AAGTTTACATTATGTTTGAAA-CATTTTATATTATGTAAAAGTAAGAC
1 TTTTTTTAATTGTCAACCA-TTTACATTATGTTTGAAACCGTTTT-TATTATGAAAAAGTAAGAC
* * * *
6614785 AAAACATGTTTACAAGTATAACATTGTAGGT
64 AAAA-AAGTTTATAAGTTTAACATTCTAGGT
6614816 AACGCCTTTG
Statistics
Matches: 249, Mismatches: 38, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
198 6 0.02
199 41 0.16
200 112 0.45
201 42 0.17
202 2 0.01
203 22 0.09
204 1 0.00
205 16 0.06
206 7 0.03
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.41
Consensus pattern (200 bp):
TTTTTTTAATTGTCAACCATTTACATTATGTTTGAAACCGTTTTTATTATGAAAAAGTAAGACAA
AAAAGTTTATAAGTTTAACATTCTAGGTTGCACCTTTTTTAAATTATCAATCGTTTAGATTATAT
CTTTCAAACCCTTTTTATTATGAAAAAGTAAGACAAAACATGTTTATAAGTACAACACTATAGGT
AACAC
Found at i:6614818 original size:99 final size:98
Alignment explanation
Indices: 6614317--6614815 Score: 455
Period size: 99 Copynumber: 4.9 Consensus size: 98
6614307 TATCCGTTCT
* * * *
6614317 TTTTTTTAAATTGTCAACCGTTTATATTATATGTTTGAAACCGTTTATATAATGAAAAAAATAAG
1 TTTTTTT-AATTGTCAACCGTTTAGA-TATATGTTTGAAACC-TTTTTATTATG-AAAAAGTAAG
* *
6614382 ACAAAACAGATTTATAAGTTTAAAATTCTAGATTGCACC
62 ACAAAACAG-TTTATAAGTTTAACATTCTAGGTTGCA-C
* * * * *
6614421 TTTTTTAAATTATCAATCGTTTATATTATATGTTTGAAACCCTTTTTATTATGAAAAAGTAAGAT
1 TTTTTTTAATTGTCAACCGTTTAGA-TATATGTTTGAAA-CCTTTTTATTATGAAAAAGTAAGAC
* *
6614486 AAAACAGATTTATAAGTTTAACTTTCTATGTTGCGAC
64 AAAACAG-TTTATAAGTTTAACATTCTAGGTTGC-AC
* * *
6614523 TTTTTTTAATTGTCAACCATTTAGAT-TATGTCTGAAACCGTTTTTATTATG-AAAAGTAGGACA
1 TTTTTTTAATTGTCAACCGTTTAGATATATGTTTGAAACC-TTTTTATTATGAAAAAGTAAGACA
* *
6614586 AAATAAGTTTATAAGTTTAACATTCTAGGTTGCGC
65 AAA-CAGTTTATAAGTTTAACATTCTAGGTTGCAC
* * * * * * * **
6614621 TTCTTTTAATTATCAATCGTTTAGGTTATATCTTTCAAACTGTTTTTATTATTCAAAAGTAAGAC
1 TTTTTTTAATTGTCAACCGTTTA-GATATATGTTTGAAAC-CTTTTTATTATGAAAAAGTAAGAC
** * * **
6614686 AAAACATGTTTATAAGTACAACACTATAGGTAACAC
64 AAAACA-GTTTATAAGTTTAACATTCTAGGTTGCAC
** * * *
6614722 TTTTTTTAATTGTCAAAAGTTTACAT-TATGTTTGAAACATTTTATATTATGTAAAAGTAAGACA
1 TTTTTTTAATTGTCAACCGTTTAGATATATGTTTGAAACCTTTT-TATTATGAAAAAGTAAGACA
* * *
6614786 AAACATGTTTACAAGTATAACATTGTAGGT
65 AAACA-GTTTATAAGTTTAACATTCTAGGT
6614816 AACGCCTTTG
Statistics
Matches: 328, Mismatches: 57, Indels: 25
0.80 0.14 0.06
Matches are distributed among these distances:
98 24 0.07
99 95 0.29
100 44 0.13
101 56 0.17
102 61 0.19
103 40 0.12
104 8 0.02
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.41
Consensus pattern (98 bp):
TTTTTTTAATTGTCAACCGTTTAGATATATGTTTGAAACCTTTTTATTATGAAAAAGTAAGACAA
AACAGTTTATAAGTTTAACATTCTAGGTTGCAC
Found at i:6615572 original size:75 final size:76
Alignment explanation
Indices: 6615217--6615802 Score: 477
Period size: 78 Copynumber: 7.4 Consensus size: 76
6615207 TTTTTTAGCA
* * * *
6615217 CAACTTATTTTATTTAAAAAAATATTAAGATAACATATCACAATCTATTTCTATTTAAAACCATG
1 CAACCTATTTTA-TTAAAAAAATATTAACATAACATATCACAACCTATTTCTATTCAAAACCATG
*
6615282 ACATTCTTAGGTG
65 ACATTCTT-GGAG
* * * * * *
6615295 CAACCTGTTTTATCAAAAACATATTAACATAACATAACATATTGCAACATGTTTCTATTCAAAAC
1 CAACCTATTTTATTAAAAAAATATTAACATAACATATC--A---CAACCTATTTCTATTCAAAAC
*
6615360 CATGACATTCTTGGGCG
61 CATGACATTCTT-GGAG
* * * * * *
6615377 CGACCTATTTTGTTAAAAAAAATATTAATATTACATTACATATCGCAACCTACTTTCTTAGT--G
1 CAACCTATTTTATT-AAAAAAATA-T--TA--ACATAACATATCACAACCTA-TTTC-TATTCAA
*
6615440 AACCATGACATTATTGGGAG
58 AACCATGACATTCTT-GGAG
* * *
6615460 CAACCTATTTT-TTCAATAAAAATTTTAACATAACATATCACAACCTATTTCTATTCAAAATCAC
1 CAACCTATTTTATT-AA-AAAAATATTAACATAACATATCACAACCTATTTCTATTCAAAACCAT
*
6615524 GACATTTTTGGCA-
64 GACATTCTTGG-AG
** * *
6615537 CAACCTATTTTATT-AAAAAATATTAACATAACATATTGCAACCTATTTCTATTCAACACCGTGA
1 CAACCTATTTTATTAAAAAAATATTAACATAACATATCACAACCTATTTCTATTCAAAACCATGA
6615601 CATTCTTGGACG
66 CATTCTTGGA-G
* * * *
6615613 TAACATATTTTATTTAAAAAAATATTAACATAATATATCACAACTTATTTCTATTCAAAACCATG
1 CAACCTATTTTA-TTAAAAAAATATTAACATAACATATCACAACCTATTTCTATTCAAAACCATG
*
6615678 TCATTCTTGGAAG
65 ACATTCTTGG-AG
* * * *
6615691 CAACCTATTTTATT-AAAAAATATTAACATTACATTACATATGACAACATACTTTCTTAGT--GA
1 CAACCTATTTTATTAAAAAAATATTAACA-T--A--ACATATCACAACCTA-TTTC-TATTCAAA
* *
6615753 ACTATAACATTCTTGGGAG
59 ACCATGACATTCTT-GGAG
*
6615772 CAATCTATTTTATTAATAAAAATATTAACAT
1 CAACCTATTTTATTAA-AAAAATATTAACAT
6615803 TACGTACTGC
Statistics
Matches: 411, Mismatches: 64, Indels: 62
0.77 0.12 0.12
Matches are distributed among these distances:
74 1 0.00
75 50 0.12
76 28 0.07
77 44 0.11
78 106 0.26
79 3 0.01
80 2 0.00
81 39 0.09
82 55 0.13
83 63 0.15
84 5 0.01
85 3 0.01
86 2 0.00
88 10 0.02
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.36
Consensus pattern (76 bp):
CAACCTATTTTATTAAAAAAATATTAACATAACATATCACAACCTATTTCTATTCAAAACCATGA
CATTCTTGGAG
Found at i:6615622 original size:153 final size:151
Alignment explanation
Indices: 6615208--6615724 Score: 482
Period size: 153 Copynumber: 3.3 Consensus size: 151
6615198 TTTTTTTATT
* * * * *
6615208 TTTTTAGCACAACTTATTTTATTTAAAAAAATATTAAGATAACATATCACAATCTATTTCTATTT
1 TTTTTGGCACAACCTATTTTA-TTAAAAAAATATTAACATAACATATCGCAACCTATTTCTA-TT
* * * * *
6615273 AAAACCATGACATTCTTAGGTGCAACCTGTTTTATCAAAAACATATTAACATAACATAACATATT
64 -AAACCATGACATTCTTAGGAGCAACCTATTTTTTCAAAAA-A-ATT---TTAACATAACATATC
* *
6615338 GCAACATGTTTCTATTCAAAACCATGACA
123 ACAACATATTTCTATTCAAAACCATGACA
* * * * *
6615367 TTCTTGGGCGCGACCTATTTTGTTAAAAAAAATATTAATATTACATTACATATCGCAACCTACTT
1 TT-TTTGGCACAACCTATTTTATT-AAAAAAATA-T--TA--ACATAACATATCGCAACCTA-TT
* * * *
6615432 TCTTAGTGAACCATGACATTATTGGGAGCAACCTATTTTTTCAATAAAAATTTTAACATAACATA
58 TC-TATTAAACCATGACATTCTTAGGAGCAACCTATTTTTTCAA-AAAAATTTTAACATAACATA
* * *
6615497 TCACAACCTATTTCTATTCAAAATCACGACA
121 TCACAACATATTTCTATTCAAAACCATGACA
*
6615528 TTTTTGGCACAACCTATTTTATT-AAAAAATATTAACATAACATATTGCAACCTATTTCTATTCA
1 TTTTTGGCACAACCTATTTTATTAAAAAAATATTAACATAACATATCGCAACCTATTTCTATT-A
* * * * * *
6615592 ACACCGTGACATTCTT-GGACGTAACATATTTTATTTAAAAAAATATTAACATAATATATCACAA
65 A-ACCATGACATTCTTAGGA-GCAACCTATTTT-TTCAAAAAAATTTTAACATAACATATCACAA
* *
6615656 CTTATTTCTATTCAAAACCATGTCA
127 CATATTTCTATTCAAAACCATGACA
* * *
6615681 TTCTTGGAAGCAACCTATTTTATT-AAAAAATATTAACATTACAT
1 TTTTTGGCA-CAACCTATTTTATTAAAAAAATATTAACATAACAT
6615725 TACATATGAC
Statistics
Matches: 297, Mismatches: 46, Indels: 35
0.79 0.12 0.09
Matches are distributed among these distances:
151 3 0.01
152 8 0.03
153 92 0.31
154 37 0.12
155 2 0.01
157 1 0.00
158 8 0.03
159 4 0.01
160 39 0.13
161 40 0.13
163 2 0.01
164 3 0.01
165 48 0.16
166 8 0.03
167 2 0.01
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.36
Consensus pattern (151 bp):
TTTTTGGCACAACCTATTTTATTAAAAAAATATTAACATAACATATCGCAACCTATTTCTATTAA
ACCATGACATTCTTAGGAGCAACCTATTTTTTCAAAAAAATTTTAACATAACATATCACAACATA
TTTCTATTCAAAACCATGACA
Found at i:6615823 original size:312 final size:317
Alignment explanation
Indices: 6615208--6615802 Score: 776
Period size: 312 Copynumber: 1.9 Consensus size: 317
6615198 TTTTTTTATT
* * * *
6615208 TTTTTAGCACAACTTATTTTATTTAAAAAAATATTAAGATAACATATCACAATCTATTTCTATTT
1 TTTTTAGCACAACCTATTTTATTTAAAAAAATATTAACATAACATATCACAACCTATTTCTATTC
* * * * *
6615273 AAAACCATGACATTCTTAGGTGCAACCTGTTTTATCAAAAACATATTAACATAACATAACATATT
66 AAAACCATGACATTCTTAGGCGCAACATATTTTATCAAAAAAATATTAACATAACAT-A-ATATC
* * ** * *
6615338 GCAACATGTTTCTATTCAAAACCATGACATTCTTGGGCGCGACCTATTTTGTTAAAAAAAATATT
129 ACAACATATTTCTATTCAAAACCATGACATTCTTGGAAGCAACCTATTTTATT-AAAAAAATATT
* * *
6615403 AATATTACATTACATATCGCAACCTACTTTCTTAGTGAACCATGACATTATTGGGAGCAACCTAT
193 AACATTACATTACATATCGCAACATACTTTCTTAGTGAACCATAACATTATTGGGAGCAACCTAT
* *
6615468 TTTTTCAATAAAAATTTTAACATAACATATCACAACCTATTTCTATTCAAAATCACGACA
258 TTTTTCAATAAAAATATTAACATAACATATCACAACATATTTCTATTCAAAATCACGACA
* **
6615528 TTTTTGGCACAACCTATTTTA-TT-AAAAAATATTAACATAACATATTGCAACCTATTTCTATTC
1 TTTTTAGCACAACCTATTTTATTTAAAAAAATATTAACATAACATATCACAACCTATTTCTATTC
* * * *
6615591 AACACCGTGACATTCTT-GGACGTAACATATTTTATTTAAAAAAATATTAACAT-A-AT-ATATC
66 AAAACCATGACATTCTTAGG-CGCAACATATTTTA-TCAAAAAAATATTAACATAACATAATATC
* *
6615652 ACAACTTATTTCTATTCAAAACCATGTCATTCTTGGAAGCAACCTATTTTATT-AAAAAATATTA
129 ACAACATATTTCTATTCAAAACCATGACATTCTTGGAAGCAACCTATTTTATTAAAAAAATATTA
* * *
6615716 ACATTACATTACATAT-GACAACATACTTTCTTAGTGAACTATAACATTCTTGGGAGCAATCTAT
194 ACATTACATTACATATCG-CAACATACTTTCTTAGTGAACCATAACATTATTGGGAGCAACCTAT
6615780 TTTATT-AATAAAAATATTAACAT
258 TTT-TTCAATAAAAATATTAACAT
6615803 TACGTACTGC
Statistics
Matches: 240, Mismatches: 31, Indels: 16
0.84 0.11 0.06
Matches are distributed among these distances:
311 1 0.00
312 86 0.36
313 2 0.01
314 49 0.20
317 4 0.02
318 61 0.25
319 18 0.08
320 19 0.08
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.36
Consensus pattern (317 bp):
TTTTTAGCACAACCTATTTTATTTAAAAAAATATTAACATAACATATCACAACCTATTTCTATTC
AAAACCATGACATTCTTAGGCGCAACATATTTTATCAAAAAAATATTAACATAACATAATATCAC
AACATATTTCTATTCAAAACCATGACATTCTTGGAAGCAACCTATTTTATTAAAAAAATATTAAC
ATTACATTACATATCGCAACATACTTTCTTAGTGAACCATAACATTATTGGGAGCAACCTATTTT
TTCAATAAAAATATTAACATAACATATCACAACATATTTCTATTCAAAATCACGACA
Found at i:6617996 original size:13 final size:13
Alignment explanation
Indices: 6617978--6618004 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6617968 TGTATTCAGA
6617978 TTACCAATATAGG
1 TTACCAATATAGG
6617991 TTACCAATATAGG
1 TTACCAATATAGG
6618004 T
1 T
6618005 AGCAGAAGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
TTACCAATATAGG
Found at i:6619598 original size:3 final size:3
Alignment explanation
Indices: 6619576--6619625 Score: 57
Period size: 3 Copynumber: 16.3 Consensus size: 3
6619566 ATATTATAAA
* *
6619576 TAT TAAT TA- TAT TGT TAT TAT TAT TAT TAT TAT TAT TAA TATT TAT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT
6619622 TAT T
1 TAT T
6619626 TTACATTTGC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 2 0.05
3 33 0.82
4 5 0.12
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:6623392 original size:344 final size:343
Alignment explanation
Indices: 6622850--6623626 Score: 1010
Period size: 344 Copynumber: 2.3 Consensus size: 343
6622840 TCTCAGTAGG
* * ** *
6622850 CACTATTTCAGCTACTTTCTAATGCTCAATTAATTAACCGTGTCAACTA-TTCTTTAGAGGTCAT
1 CACTGTTTCAGCTACTTTCTAGTGCTCAATTAATGCACCGTGTCAACTACTT-TTAAGAGGTCAT
** * * * *
6622914 TTATTATATCAATAATGTAACGATTGGATTATTGTTAGACATTTACTATAGAATTCAATCAACTT
65 TTATTGCAACAATAATGTAACGGTTGGATTATTGTTAGACATTTACTACAGAATTCAAACAACTT
* * * *
6622979 TTCAGAAAATGGGTGAAATAGTGGTGCATTATCATCTTTAACAACTTTTCAGTGATATGTCAACT
130 TTCAGAAAATGGGTGAAATAGTGGTGCATTATAATCTTCAACAACTTTTCAATGATATATCAACT
* * * * *
6623044 CAAATCAGATAATATGATTTTAACTCCA-GCAAAATAATGCATCATTACAGCTATTGTTCAGTGA
195 CAAATCAGACAACATGATTTTAACT-CAGGAAAAATAATGCAACATTACAGCTATTGTTCAATGA
* ** * *
6623108 AATATGAACTCAAATCTTAAAACTTTGT-GGTTTTGAATTATCACTTCAAATAAAAAAACGTGTA
259 AATACGAACTCAAATCTTAAAACTTT-TCAATTTTGAATTATCAATTCAAATAAAAAAACATGTA
* *
6623172 TTTAAAACAGGATAAATTATT
323 TTTAAAACAAGACAAATTATT
* *
6623193 CACTGTTTTAGCTACTTTCCAGTGCTCAATTAATGCACCGTGT-AAGCTACTTTTAAGAGGTCAT
1 CACTGTTTCAGCTACTTTCTAGTGCTCAATTAATGCACCGTGTCAA-CTACTTTTAAGAGGTCAT
* * * * * * * * *
6623257 TTATTGCAGCAATAATGCAATGGTTGTATATTTTGTTGGTCATTTACTGCATAATTCAAACAACT
65 TTATTGCAACAATAATGTAACGGTTGGAT-TATTGTTAGACATTTACTACAGAATTCAAACAACT
6623322 TTTCAG-AAATCGGGTGAAATAGTGGTGCATTATAATCTTCAGA-AACTTTTCAATGATATATCA
129 TTTCAGAAAAT-GGGTGAAATAGTGGTGCATTATAATCTTCA-ACAACTTTTCAATGATATATCA
* * * * *
6623385 ACTCAAATCAGACAACGTGTTTTTAACTTAGGAAAAATAATGCAACCTTACGGCTATTGTTCAAT
192 ACTCAAATCAGACAACATGATTTTAACTCAGGAAAAATAATGCAACATTACAGCTATTGTTCAAT
6623450 GAAATACGAACTCAAATCTTAAAACTTTTCAATTTTGAATTATCAATTCAAATAAAAAAACATGT
257 GAAATACGAACTCAAATCTTAAAACTTTTCAATTTTGAATTATCAATTCAAATAAAAAAACATGT
*
6623515 ATTTAAAACAAGCCAAATTATT
322 ATTTAAAACAAGACAAATTATT
* * *
6623537 CATTGTTTCAGCTATTTTCTAGTGCTCAATTAATGCAACGTGTCAACTACTTTTCAA-AGGTCAT
1 CACTGTTTCAGCTACTTTCTAGTGCTCAATTAATGCACCGTGTCAACTACTTTT-AAGAGGTCAT
6623601 TTATTGCAACAATAATGTAACGGTTG
65 TTATTGCAACAATAATGTAACGGTTG
6623627 ACTTTTTAGA
Statistics
Matches: 374, Mismatches: 51, Indels: 17
0.85 0.12 0.04
Matches are distributed among these distances:
342 2 0.01
343 79 0.21
344 288 0.77
345 5 0.01
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (343 bp):
CACTGTTTCAGCTACTTTCTAGTGCTCAATTAATGCACCGTGTCAACTACTTTTAAGAGGTCATT
TATTGCAACAATAATGTAACGGTTGGATTATTGTTAGACATTTACTACAGAATTCAAACAACTTT
TCAGAAAATGGGTGAAATAGTGGTGCATTATAATCTTCAACAACTTTTCAATGATATATCAACTC
AAATCAGACAACATGATTTTAACTCAGGAAAAATAATGCAACATTACAGCTATTGTTCAATGAAA
TACGAACTCAAATCTTAAAACTTTTCAATTTTGAATTATCAATTCAAATAAAAAAACATGTATTT
AAAACAAGACAAATTATT
Found at i:6625512 original size:17 final size:17
Alignment explanation
Indices: 6625490--6625533 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
6625480 TTAAATAATC
6625490 AATATAAAATATAAAAA
1 AATATAAAATATAAAAA
*
6625507 AATATAAAATATAAAAC
1 AATATAAAATATAAAAA
*
6625524 AATTTAAAAT
1 AATATAAAAT
6625534 TTCTAAGAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (17 bp):
AATATAAAATATAAAAA
Found at i:6625598 original size:2 final size:2
Alignment explanation
Indices: 6625591--6625618 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6625581 GGTCGCAACC
6625591 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6625619 GAATGATTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6625939 original size:2 final size:2
Alignment explanation
Indices: 6625932--6625969 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
6625922 AAATTCATTT
6625932 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6625970 AAAGTCTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6628282 original size:20 final size:21
Alignment explanation
Indices: 6628259--6628354 Score: 110
Period size: 20 Copynumber: 4.8 Consensus size: 21
6628249 ACAGGTTCCA
6628259 AAATCGCAACGCGAATAGT-T
1 AAATCGCAACGCGAATAGTCT
*** *
6628279 AAATCGCAACAATAATA-TGT
1 AAATCGCAACGCGAATAGTCT
*
6628299 AAATCGCAACGCGAA-AGTCA
1 AAATCGCAACGCGAATAGTCT
*
6628319 AAATCGCAACGCGAATAG-GT
1 AAATCGCAACGCGAATAGTCT
6628339 AAATCGCAACGCGAAT
1 AAATCGCAACGCGAAT
6628355 TTATTTTTCA
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
19 2 0.03
20 59 0.94
21 2 0.03
ACGTcount: A:0.44, C:0.21, G:0.19, T:0.17
Consensus pattern (21 bp):
AAATCGCAACGCGAATAGTCT
Found at i:6628303 original size:40 final size:41
Alignment explanation
Indices: 6628259--6628354 Score: 133
Period size: 40 Copynumber: 2.4 Consensus size: 41
6628249 ACAGGTTCCA
* * *
6628259 AAATCGCAACGCGAATAGT-TAAATCGCAACAATAATATGT
1 AAATCGCAACGCGAATAGTCAAAATCGCAACAAGAATAGGT
**
6628299 AAATCGCAACGCGAA-AGTCAAAATCGCAACGCGAATAGGT
1 AAATCGCAACGCGAATAGTCAAAATCGCAACAAGAATAGGT
6628339 AAATCGCAACGCGAAT
1 AAATCGCAACGCGAAT
6628355 TTATTTTTCA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.06
40 46 0.94
ACGTcount: A:0.44, C:0.21, G:0.19, T:0.17
Consensus pattern (41 bp):
AAATCGCAACGCGAATAGTCAAAATCGCAACAAGAATAGGT
Found at i:6628424 original size:40 final size:40
Alignment explanation
Indices: 6628380--6628469 Score: 126
Period size: 40 Copynumber: 2.2 Consensus size: 40
6628370 CAAGTTTCCT
* *
6628380 TTTCGCAACAAGATTTTCTAAATCGCAACACGAATTTTGA
1 TTTCGCAACAAGATTTTCGAAATCGCAACACGAATTTTAA
** * *
6628420 TTTCGCAACTCGATTTTCGAATTCGCAACATGAATTTTAA
1 TTTCGCAACAAGATTTTCGAAATCGCAACACGAATTTTAA
6628460 TTTCGCAACA
1 TTTCGCAACA
6628470 GCTTTTATTT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.34
Consensus pattern (40 bp):
TTTCGCAACAAGATTTTCGAAATCGCAACACGAATTTTAA
Found at i:6628425 original size:20 final size:20
Alignment explanation
Indices: 6628402--6628469 Score: 84
Period size: 20 Copynumber: 3.4 Consensus size: 20
6628392 ATTTTCTAAA
6628402 TCGCAACACGAATTTTGATT
1 TCGCAACACGAATTTTGATT
* *
6628422 TCGCAACTCG-ATTTTCGAAT
1 TCGCAACACGAATTTT-GATT
* *
6628442 TCGCAACATGAATTTTAATT
1 TCGCAACACGAATTTTGATT
6628462 TCGCAACA
1 TCGCAACA
6628470 GCTTTTATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
19 5 0.12
20 30 0.75
21 5 0.12
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (20 bp):
TCGCAACACGAATTTTGATT
Found at i:6629447 original size:24 final size:24
Alignment explanation
Indices: 6629396--6629449 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
6629386 GTATTCGAAA
*
6629396 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
6629420 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
6629444 TTTGAT
1 TTTGAT
6629450 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:6630456 original size:24 final size:20
Alignment explanation
Indices: 6630408--6630447 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
6630398 TTCTTGTGTA
6630408 TATTATTTTGTAGATTCGTT
1 TATTATTTTGTAGATTCGTT
6630428 TATTATTTTGTAGATTCGTT
1 TATTATTTTGTAGATTCGTT
6630448 CGTTTATTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.05, G:0.15, T:0.60
Consensus pattern (20 bp):
TATTATTTTGTAGATTCGTT
Found at i:6631754 original size:12 final size:12
Alignment explanation
Indices: 6631737--6631771 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
6631727 AGCAAAAGGA
6631737 AATCAAAATCGC
1 AATCAAAATCGC
*
6631749 AATCAAAATCTC
1 AATCAAAATCGC
*
6631761 AATCACAATCG
1 AATCAAAATCG
6631772 ACTTCACCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.49, C:0.26, G:0.06, T:0.20
Consensus pattern (12 bp):
AATCAAAATCGC
Found at i:6632402 original size:14 final size:13
Alignment explanation
Indices: 6632369--6632410 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
6632359 GAAATTAAAC
6632369 AACAAATCAATTA
1 AACAAATCAATTA
*
6632382 AACAAATCAACTTT
1 AACAAATCAA-TTA
*
6632396 TACAAATCAATTA
1 AACAAATCAATTA
6632409 AA
1 AA
6632411 TAAGCAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.26
Consensus pattern (13 bp):
AACAAATCAATTA
Found at i:6632448 original size:64 final size:64
Alignment explanation
Indices: 6632374--6632549 Score: 298
Period size: 64 Copynumber: 2.8 Consensus size: 64
6632364 TAAACAACAA
* *
6632374 ATCAATTAAACAAATCAACTTTTACAAATCAATTAAATAAGCAAAAAATAAGAATTATTTGCAC
1 ATCAATTAAACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAAGAATTATTTCCAC
*** *
6632438 ATCAATTAAACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTCCTC
1 ATCAATTAAACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAAGAATTATTTCCAC
6632502 ATCAATTAAACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAA
1 ATCAATTAAACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAA
6632550 GGTGTACCCC
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 106 1.00
ACGTcount: A:0.53, C:0.16, G:0.03, T:0.28
Consensus pattern (64 bp):
ATCAATTAAACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAAGAATTATTTCCAC
Found at i:6633926 original size:21 final size:20
Alignment explanation
Indices: 6633897--6634008 Score: 75
Period size: 21 Copynumber: 5.4 Consensus size: 20
6633887 GTGAATTGGG
* *
6633897 CTCTCGAACGGTGGGAGGGAC
1 CTCTTGAACGGTGAGAGGG-C
* * *
6633918 CTCTTGAACGATGACAAAGGC
1 CTCTTGAACGGTGA-GAGGGC
*
6633939 CTCCTGAACGGTGAGAGGGC
1 CTCTTGAACGGTGAGAGGGC
*
6633959 CTCTTGAA-GGATGATAGGGGC
1 CTCTTGAACGG-TGAGA-GGGC
* *
6633980 TTCTTGAACGAT-AGGAGAGGC
1 CTCTTGAACGGTGA-GAG-GGC
6634001 CTCTTGAA
1 CTCTTGAA
6634009 TGATGACAGA
Statistics
Matches: 70, Mismatches: 15, Indels: 12
0.72 0.15 0.12
Matches are distributed among these distances:
19 2 0.03
20 17 0.24
21 47 0.67
22 4 0.06
ACGTcount: A:0.25, C:0.21, G:0.34, T:0.21
Consensus pattern (20 bp):
CTCTTGAACGGTGAGAGGGC
Found at i:6634386 original size:21 final size:21
Alignment explanation
Indices: 6634362--6634405 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
6634352 ATTGTCATCG
6634362 CGTAAA-ACCTCTACCTCACCA
1 CGTAAAGACC-CTACCTCACCA
* *
6634383 CGTAAAGACCGTACCTCATCA
1 CGTAAAGACCCTACCTCACCA
6634404 CG
1 CG
6634406 CCATGCACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.32, C:0.39, G:0.11, T:0.18
Consensus pattern (21 bp):
CGTAAAGACCCTACCTCACCA
Found at i:6634446 original size:21 final size:21
Alignment explanation
Indices: 6634422--6634471 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
6634412 ACCATTGTCG
*
6634422 TCACGTAAAGTATCGACCTCC
1 TCACGTAAAGTATCGACCTCA
** *
6634443 TCACACAAAGTATTGACCTCA
1 TCACGTAAAGTATCGACCTCA
6634464 TCACGTAA
1 TCACGTAA
6634472 CTCCCCTAAC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.34, C:0.30, G:0.12, T:0.24
Consensus pattern (21 bp):
TCACGTAAAGTATCGACCTCA
Found at i:6634611 original size:21 final size:21
Alignment explanation
Indices: 6634586--6634661 Score: 107
Period size: 21 Copynumber: 3.6 Consensus size: 21
6634576 GTGATGGAAT
*
6634586 AGGTGATGGCTCTCATTGTGG
1 AGGTGATGGCTCTCGTTGTGG
*
6634607 AGGTGATAGCTCTCGTTGTGG
1 AGGTGATGGCTCTCGTTGTGG
* **
6634628 TGGTGATGGCTCTCGTTGAAG
1 AGGTGATGGCTCTCGTTGTGG
6634649 AGGTGATGGCTCT
1 AGGTGATGGCTCT
6634662 AGGTGTCGAG
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.14, C:0.14, G:0.38, T:0.33
Consensus pattern (21 bp):
AGGTGATGGCTCTCGTTGTGG
Found at i:6638675 original size:29 final size:29
Alignment explanation
Indices: 6638655--6638711 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
6638645 ATCTATTTTC
6638655 GCCCCCTAAAATTTTATAAATTCAAGTTT
1 GCCCCCTAAAATTTTATAAATTCAAGTTT
* * *
6638684 GCCCTCTAAAATTTTGTAAGTTCAAGTT
1 GCCCCCTAAAATTTTATAAATTCAAGTT
6638712 CGTCCCCAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.39
Consensus pattern (29 bp):
GCCCCCTAAAATTTTATAAATTCAAGTTT
Found at i:6648416 original size:117 final size:117
Alignment explanation
Indices: 6648193--6648425 Score: 274
Period size: 117 Copynumber: 2.0 Consensus size: 117
6648183 TGAAACCGGA
* * ** *
6648193 TGTCCCCTCAACAATGTCATGAACAATATTTTGTCTTCTAAATCAATGTTACCCTTCAAAATCTC
1 TGTCCCCTCAACAATGTCATGAACAACATCTCATCTTCTAAATCAAAGTTACCCTTCAAAATCTC
** * * * *
6648258 CATGTCATCGGTGCCATTTGGTTCTTTCGAAGATTGTTTGCGACCCAAGTTT
66 CATGTCATAAGCGCCATTAGGTTCTTTCGAAAATTGCTTGCGACCCAAGTTT
** *
6648310 TGTCCCCTCAAGGATGTCATGAACAACGTCTCATCTTCTAAATCAAAGTTA-CCTTGCAAAATCT
1 TGTCCCCTCAACAATGTCATGAACAACATCTCATCTTCTAAATCAAAGTTACCCTT-CAAAATCT
* *
6648374 CTCCT-TCGTAAGCGCCATTAGGTTCATTT-GAAAATTGCTTGCGACCCAAGTT
65 C-CATGTCATAAGCGCCATTAGGTTC-TTTCGAAAATTGCTTGCGACCCAAGTT
6648426 ATGTTGAACT
Statistics
Matches: 97, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
116 4 0.04
117 88 0.91
118 5 0.05
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (117 bp):
TGTCCCCTCAACAATGTCATGAACAACATCTCATCTTCTAAATCAAAGTTACCCTTCAAAATCTC
CATGTCATAAGCGCCATTAGGTTCTTTCGAAAATTGCTTGCGACCCAAGTTT
Found at i:6648607 original size:34 final size:36
Alignment explanation
Indices: 6648563--6648664 Score: 154
Period size: 34 Copynumber: 2.9 Consensus size: 36
6648553 TTTCGTCCTA
*
6648563 CTAGGATTCAAACTCCTAAAAATATGATAGAA-TTT
1 CTAGGATTCAAACTCCTAAAAATAAGATAGAATTTT
*
6648598 -TAGGATTCAAACTCCTAAAAATAAGATAAAATTTT
1 CTAGGATTCAAACTCCTAAAAATAAGATAGAATTTT
*
6648633 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAAGATAGA
6648665 GTTCTACTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
34 29 0.48
35 3 0.05
37 28 0.47
ACGTcount: A:0.45, C:0.14, G:0.13, T:0.28
Consensus pattern (36 bp):
CTAGGATTCAAACTCCTAAAAATAAGATAGAATTTT
Found at i:6649095 original size:18 final size:17
Alignment explanation
Indices: 6649056--6649098 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
6649046 ATTATATGGA
6649056 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
6649072 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
6649090 TATTATTAT
1 TATTATTAT
6649099 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:6649601 original size:2 final size:2
Alignment explanation
Indices: 6649594--6649631 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
6649584 TAATACTTTG
*
6649594 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6649632 TTTTTTCCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:6649696 original size:20 final size:22
Alignment explanation
Indices: 6649668--6649707 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
6649658 TATATAATTA
*
6649668 TTATTTTAC-TATTT-TTTTTC
1 TTATCTTACTTATTTATTTTTC
6649688 TTATCTTACTTATTTATTTT
1 TTATCTTACTTATTTATTTT
6649708 ATTTTTCCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 5 0.29
22 4 0.24
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.72
Consensus pattern (22 bp):
TTATCTTACTTATTTATTTTTC
Found at i:6652231 original size:8 final size:8
Alignment explanation
Indices: 6652218--6652256 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
6652208 GAACATTTCA
*
6652218 TGCATTCT
1 TGCATTTT
6652226 TGCA-TTT
1 TGCATTTT
6652233 TGCATTTT
1 TGCATTTT
*
6652241 TGCCTTTT
1 TGCATTTT
6652249 TGCATTTT
1 TGCATTTT
6652257 CATCTACATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.10, C:0.18, G:0.13, T:0.59
Consensus pattern (8 bp):
TGCATTTT
Found at i:6654158 original size:22 final size:22
Alignment explanation
Indices: 6654127--6654172 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
6654117 CCCCATCAAT
*
6654127 CCTTTGAGCATCAAATACCAAA
1 CCTTTAAGCATCAAATACCAAA
*
6654149 CCTTTAAGCATCAAATGCCAAA
1 CCTTTAAGCATCAAATACCAAA
6654171 CC
1 CC
6654173 CTTGACCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.39, C:0.30, G:0.09, T:0.22
Consensus pattern (22 bp):
CCTTTAAGCATCAAATACCAAA
Found at i:6655407 original size:37 final size:37
Alignment explanation
Indices: 6655337--6655408 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
6655327 TGGAACTAAG
* * *
6655337 TTTTGTCTCTCTTGAAACAGTTTTTCTTAAAACAAAT
1 TTTTGTCTCCCTTGAAACAGTTTCTCATAAAACAAAT
* * *
6655374 TTTTGTCTCCCTTGAGACCGTTTCTCATGAAACAA
1 TTTTGTCTCCCTTGAAACAGTTTCTCATAAAACAA
6655409 CATATATCTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.42
Consensus pattern (37 bp):
TTTTGTCTCCCTTGAAACAGTTTCTCATAAAACAAAT
Found at i:6656282 original size:106 final size:106
Alignment explanation
Indices: 6656086--6656831 Score: 1118
Period size: 106 Copynumber: 7.0 Consensus size: 106
6656076 ATATAGTGCC
* * * *
6656086 ACTCGAGACAACACAAGTTCAACTTCACGACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
6656151 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
6656192 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTTTTAATAAATAACTTCCT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* * *
6656257 AATTTCAGAGCCAATTTTAATTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
6656298 ACTCCAGAAAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAATAAACAACTTCCT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
6656363 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
6656404 ACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
6656469 AATTTCAGAGCCAATTTTAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * **
6656510 ACTCCAGACAACGCAAGTTCAACTTCACGACGAATGGACCGCTGGTTGTCAACAAACAACTTCTT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* * *
6656575 AATTTTAGAGCCAATTTAAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
6656616 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* *
6656681 AATTTCATAGCCAATTTCAAATTCACAGC-ATAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGA-AGGATATTGG
* * * * * * *
6656722 ACTCAAGACAACACAAGTTCAACTTCACAACAAAAGGACGGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* * * *
6656787 AGTTCCAAAGCCAATTTCAACTTCAC-GACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
6656828 ACTC
1 ACTC
6656832 GGAACAATGT
Statistics
Matches: 584, Mismatches: 53, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
105 2 0.00
106 582 1.00
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.24
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:6657610 original size:34 final size:36
Alignment explanation
Indices: 6657566--6657667 Score: 172
Period size: 34 Copynumber: 2.9 Consensus size: 36
6657556 TTTCGTCCTA
6657566 CTAGGATTCAAACTCCTAAAAATAGGATAGAA-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
*
6657601 -TAGGATTCAAACTCCTAAAAATAGGATAAAATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
6657636 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
6657668 GTTATACTAT
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
34 30 0.48
35 3 0.05
37 29 0.47
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (36 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
Found at i:6658080 original size:18 final size:17
Alignment explanation
Indices: 6658041--6658083 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
6658031 ATTATATGGA
6658041 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
6658057 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
6658075 TATTATTAT
1 TATTATTAT
6658084 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:6658271 original size:16 final size:16
Alignment explanation
Indices: 6658250--6658281 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6658240 TAGTTTATGT
6658250 ATATATATATTATTAA
1 ATATATATATTATTAA
*
6658266 ATATATATATTCTTAA
1 ATATATATATTATTAA
6658282 TTATTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
ATATATATATTATTAA
Found at i:6676989 original size:42 final size:42
Alignment explanation
Indices: 6676938--6677019 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
6676928 CCGAAATCCT
* *
6676938 GTGTTTGTTTCATGTAATTCGTTTTTTGGAAAATGTTTTCCC
1 GTGTTTGTTTCACGTAATTCGTTTTCTGGAAAATGTTTTCCC
*
6676980 GTGTTTGTTTCACGTAATTTGTTTTCTGGAAAATGTTTTC
1 GTGTTTGTTTCACGTAATTCGTTTTCTGGAAAATGTTTTC
6677020 TAATGTTTAG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.17, C:0.11, G:0.20, T:0.52
Consensus pattern (42 bp):
GTGTTTGTTTCACGTAATTCGTTTTCTGGAAAATGTTTTCCC
Found at i:6677268 original size:21 final size:23
Alignment explanation
Indices: 6677242--6677291 Score: 70
Period size: 21 Copynumber: 2.3 Consensus size: 23
6677232 TAATTATTAA
6677242 AATATTTAAAAT-ATATT-TATT
1 AATATTTAAAATAATATTATATT
*
6677263 AATATTTATAATAATATTATATT
1 AATATTTAAAATAATATTATATT
6677286 -ATATTT
1 AATATTT
6677292 TTAATATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 11 0.42
22 11 0.42
23 4 0.15
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
AATATTTAAAATAATATTATATT
Found at i:6677269 original size:10 final size:10
Alignment explanation
Indices: 6677254--6677299 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
6677244 TATTTAAAAT
6677254 ATATTTATTA
1 ATATTTATTA
6677264 ATATTTATAATA
1 ATATTTAT--TA
6677276 ATATTATATT-
1 ATATT-TATTA
6677286 ATATTT-TTA
1 ATATTTATTA
6677295 ATATT
1 ATATT
6677300 ATAATAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
8 2 0.06
9 6 0.19
10 13 0.41
11 1 0.03
12 7 0.22
13 3 0.09
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
ATATTTATTA
Found at i:6677287 original size:26 final size:25
Alignment explanation
Indices: 6677226--6677287 Score: 69
Period size: 23 Copynumber: 2.6 Consensus size: 25
6677216 ATTTTCATCT
6677226 AAATATTA-ATTATTAAAATATTTA
1 AAATATTATATTATTAAAATATTTA
*
6677250 AAATA-TAT-TTATTAATAT-TTATA
1 AAATATTATATTATTAAAATATT-TA
6677273 ATAATATTATATTAT
1 A-AATATTATATTAT
6677288 ATTTTTAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
22 2 0.06
23 14 0.44
24 9 0.28
25 3 0.09
26 4 0.12
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
AAATATTATATTATTAAAATATTTA
Found at i:6677289 original size:22 final size:22
Alignment explanation
Indices: 6677242--6677297 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
6677232 TAATTATTAA
*
6677242 AATATTTAAAAT-ATATTTATT
1 AATATTTATAATAATATTTATT
6677263 AATATTTATAATAATATTATATT
1 AATATTTATAATAATATT-TATT
*
6677286 -ATATTTTTAATA
1 AATATTTATAATA
6677298 TTATAATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 11 0.35
22 16 0.52
23 4 0.13
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
AATATTTATAATAATATTTATT
Found at i:6677298 original size:31 final size:30
Alignment explanation
Indices: 6677253--6677412 Score: 110
Period size: 28 Copynumber: 5.4 Consensus size: 30
6677243 ATATTTAAAA
6677253 TATATTTATTAATATTTATAATAATATTATAT
1 TATATTT-TTAATA-TTATAATAATATTATAT
*
6677285 TATATTTTTAATATTATAATAA-AATA-AT
1 TATATTTTTAATATTATAATAATATTATAT
* *
6677313 CA-A---TT-ATATTATAATAATATAAGATAT
1 TATATTTTTAATATTATAATAATAT--TATAT
*
6677340 TATATTTTTAATAAATATATAATAA-ATT-TTT
1 TATATTTTTAAT--AT-TATAATAATATTATAT
6677371 TATATATTTTAATA--ATGAATAATATTAT-T
1 TATAT-TTTTAATATTAT-AATAATATTATAT
*
6677400 TATATATTTAATA
1 TATATTTTTAATA
6677413 ATAATCTAAT
Statistics
Matches: 104, Mismatches: 8, Indels: 36
0.70 0.05 0.24
Matches are distributed among these distances:
23 12 0.12
24 3 0.03
26 1 0.01
27 6 0.06
28 16 0.15
29 12 0.12
30 11 0.11
31 15 0.14
32 16 0.15
34 4 0.04
35 8 0.08
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (30 bp):
TATATTTTTAATATTATAATAATATTATAT
Found at i:6677319 original size:32 final size:32
Alignment explanation
Indices: 6677253--6677332 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 32
6677243 ATATTTAAAA
* *
6677253 TATATTTATTAATATTTATAATAATATTATAT
1 TATATTTATTAATATTTATAATAAAATAATAT
6677285 TATATTT-TTAATA-TTATAATAAAATAATCAAT
1 TATATTTATTAATATTTATAATAAAATAAT--AT
*
6677317 TATATTATAATAATAT
1 TATATT-TATTAATAT
6677333 AAGATATTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
30 13 0.32
31 6 0.15
32 15 0.38
33 1 0.03
34 5 0.12
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (32 bp):
TATATTTATTAATATTTATAATAAAATAATAT
Found at i:6677415 original size:31 final size:30
Alignment explanation
Indices: 6677261--6677428 Score: 111
Period size: 29 Copynumber: 5.7 Consensus size: 30
6677251 AATATATTTA
* * *
6677261 TTAATATTTATAATAATATTATATTATATTT
1 TTAATAATAATAATAATATTAT-TTATATAT
* * * **
6677292 TTAAT-ATTATAATAAAATAATCAAT-TAT
1 TTAATAATAATAATAATATTATTTATATAT
* *
6677320 ATT-ATAATAAT-ATAAGA-TA-TTATATTT
1 -TTAATAATAATAATAATATTATTTATATAT
*
6677347 TTAATAAATATATAATAA-ATTTTTTATATAT
1 TTAAT-AATA-ATAATAATATTATTTATATAT
6677378 TT--TAATAATGAATAATATTATTTATATAT
1 TTAATAATAAT-AATAATATTATTTATATAT
6677407 TTAATAATAATCTAATAATATT
1 TTAATAATAA--TAATAATATT
6677429 TTAATTAAAA
Statistics
Matches: 107, Mismatches: 15, Indels: 29
0.71 0.10 0.19
Matches are distributed among these distances:
26 4 0.04
27 7 0.07
28 22 0.21
29 26 0.24
30 18 0.17
31 20 0.19
32 9 0.08
33 1 0.01
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (30 bp):
TTAATAATAATAATAATATTATTTATATAT
Found at i:6677449 original size:23 final size:23
Alignment explanation
Indices: 6677430--6677474 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
6677420 AATAATATTT
6677430 TAATTAAAATATTTAAAATATAC
1 TAATTAAAATATTTAAAATATAC
** *
6677453 TAATTAATTTTTTTAAAATATA
1 TAATTAAAATATTTAAAATATA
6677475 ATATAACACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
TAATTAAAATATTTAAAATATAC
Found at i:6677606 original size:20 final size:20
Alignment explanation
Indices: 6677570--6677609 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
6677560 TAATAAAATT
6677570 ATAAAAAATAATATTTAATA
1 ATAAAAAATAATATTTAATA
*
6677590 ATAAATAAATTAT-TTTAATA
1 ATAAA-AAATAATATTTAATA
6677610 TTTTAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
ATAAAAAATAATATTTAATA
Found at i:6677847 original size:15 final size:15
Alignment explanation
Indices: 6677827--6677877 Score: 75
Period size: 15 Copynumber: 3.4 Consensus size: 15
6677817 TATTTTCCAG
6677827 AATTCAAATTCTAGT
1 AATTCAAATTCTAGT
**
6677842 AATTCATTTTCTAGT
1 AATTCAAATTCTAGT
*
6677857 AATTCAAATTCCAGT
1 AATTCAAATTCTAGT
6677872 AATTCA
1 AATTCA
6677878 TTTTCCAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.37, C:0.16, G:0.06, T:0.41
Consensus pattern (15 bp):
AATTCAAATTCTAGT
Found at i:6677863 original size:30 final size:29
Alignment explanation
Indices: 6677813--6677884 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 29
6677803 CCAGAAATTA
* *
6677813 AATTTATTTTCCAGAATTCAAATTCTAGT
1 AATTCATTTTCCAGAATTCAAATTCCAGT
*
6677842 AATTCATTTTCTAGTAATTCAAATTCCAGT
1 AATTCATTTTCCAG-AATTCAAATTCCAGT
6677872 AATTCATTTTCCA
1 AATTCATTTTCCA
6677885 AAAAAAACCA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
29 12 0.32
30 26 0.68
ACGTcount: A:0.33, C:0.17, G:0.06, T:0.44
Consensus pattern (29 bp):
AATTCATTTTCCAGAATTCAAATTCCAGT
Found at i:6677883 original size:15 final size:15
Alignment explanation
Indices: 6677813--6677884 Score: 74
Period size: 15 Copynumber: 4.9 Consensus size: 15
6677803 CCAGAAATTA
*
6677813 AATTTATTTTCCAG-
1 AATTCATTTTCCAGT
** *
6677827 AATTCAAATTCTAGT
1 AATTCATTTTCCAGT
*
6677842 AATTCATTTTCTAGT
1 AATTCATTTTCCAGT
**
6677857 AATTCAAATTCCAGT
1 AATTCATTTTCCAGT
6677872 AATTCATTTTCCA
1 AATTCATTTTCCA
6677885 AAAAAAACCA
Statistics
Matches: 46, Mismatches: 11, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
14 10 0.22
15 36 0.78
ACGTcount: A:0.33, C:0.17, G:0.06, T:0.44
Consensus pattern (15 bp):
AATTCATTTTCCAGT
Found at i:6678071 original size:21 final size:21
Alignment explanation
Indices: 6678041--6678085 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
6678031 TGATCTATTA
6678041 ACTGACTAATTCATATCGAGT
1 ACTGACTAATTCATATCGAGT
*
6678062 ACTGATTAATTCATATCGAGT
1 ACTGACTAATTCATATCGAGT
6678083 ACT
1 ACT
6678086 ACAGAGGTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (21 bp):
ACTGACTAATTCATATCGAGT
Found at i:6688812 original size:31 final size:30
Alignment explanation
Indices: 6688773--6688831 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
6688763 AAAATTATAT
6688773 TTTGTCACTTTTATTTTAATTTAATTAAGG
1 TTTGTCACTTTTATTTTAATTTAATTAAGG
* *
6688803 TTTGATCACTTTTATTTTTATTTAGTTAA
1 TTTG-TCACTTTTATTTTAATTTAATTAA
6688832 AATTGGTCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.25, C:0.07, G:0.08, T:0.59
Consensus pattern (30 bp):
TTTGTCACTTTTATTTTAATTTAATTAAGG
Found at i:6692558 original size:20 final size:20
Alignment explanation
Indices: 6692528--6692573 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
6692518 ATCGTCGATA
* *
6692528 TTCTTTATTGTCT-TTTTTT
1 TTCTTTATTGTATCTTTATT
6692547 TTCTTATATTGTATCTTTATT
1 TTCTT-TATTGTATCTTTATT
6692568 TTCTTT
1 TTCTTT
6692574 TATCTTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 5 0.22
20 8 0.35
21 10 0.43
ACGTcount: A:0.11, C:0.11, G:0.04, T:0.74
Consensus pattern (20 bp):
TTCTTTATTGTATCTTTATT
Found at i:6698446 original size:20 final size:20
Alignment explanation
Indices: 6698396--6698438 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
6698386 AACCCATCAC
*
6698396 GTCTACATAATGAGTTTCAT
1 GTCTACCTAATGAGTTTCAT
6698416 GTCTACCTAATGAGTTTCAT
1 GTCTACCTAATGAGTTTCAT
6698436 GTC
1 GTC
6698439 ATTTTAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.40
Consensus pattern (20 bp):
GTCTACCTAATGAGTTTCAT
Found at i:6703612 original size:63 final size:62
Alignment explanation
Indices: 6703482--6703636 Score: 161
Period size: 63 Copynumber: 2.5 Consensus size: 62
6703472 CAATGTGCAT
* ** * *
6703482 CGATGCACA-TGAGTGTATCGATGCACTCCTTTAAAATAAAAACATCGAATGTCATCAGTGTAT
1 CGATGCACAGTG-GTGCATCGATGCAC-CCCCTAAAATAAAAACATCGAATGGCATCAGTGTAC
* * *
6703545 CGATGCACAAGTGGTGCATCGATGCACCCCCTAAAATACAAACATCGAATGGGATTTA-TGTAC
1 CGATGCAC-AGTGGTGCATCGATGCACCCCCTAAAATAAAAACATCGAATGGCA-TCAGTGTAC
* *
6703608 CGATGCATAGTTAGTGCATCGATGCACCC
1 CGATGCACAG-TGGTGCATCGATGCACCC
6703637 GTTAAGGGAT
Statistics
Matches: 78, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
62 2 0.03
63 58 0.74
64 16 0.21
65 2 0.03
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (62 bp):
CGATGCACAGTGGTGCATCGATGCACCCCCTAAAATAAAAACATCGAATGGCATCAGTGTAC
Found at i:6704223 original size:20 final size:20
Alignment explanation
Indices: 6704198--6704238 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
6704188 TCGAAGGATT
6704198 ATCAGTGGTCATTTGAGACA
1 ATCAGTGGTCATTTGAGACA
* *
6704218 ATCAGTGGTCTTTTGGGACA
1 ATCAGTGGTCATTTGAGACA
6704238 A
1 A
6704239 ATTTTCAGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.32
Consensus pattern (20 bp):
ATCAGTGGTCATTTGAGACA
Found at i:6710335 original size:13 final size:13
Alignment explanation
Indices: 6710317--6710342 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6710307 TTTTTTTTAA
6710317 ATATATATATTTT
1 ATATATATATTTT
6710330 ATATATATATTTT
1 ATATATATATTTT
6710343 TTGAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
ATATATATATTTT
Found at i:6710344 original size:15 final size:15
Alignment explanation
Indices: 6710309--6710344 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
6710299 GACACACTTT
6710309 TTTTTTAAATATATA
1 TTTTTTAAATATATA
* *
6710324 TATTTTATATATATA
1 TTTTTTAAATATATA
6710339 TTTTTT
1 TTTTTT
6710345 GAAAATATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTTTAAATATATA
Found at i:6710867 original size:89 final size:90
Alignment explanation
Indices: 6710716--6710896 Score: 355
Period size: 89 Copynumber: 2.0 Consensus size: 90
6710706 ATACATCACG
6710716 TGCACTCGTATAATATGAACTTTCTACTTGAGGTCTGTCTCTATTAAGCGGGGTTAAACATTATG
1 TGCACTCGTATAATATGAACTTTCTACTTGAGGTCTGTCTCTATTAAGCGGGGTTAAACATTATG
6710781 TTTTTGTGAGAATTTATT-TCTGCA
66 TTTTTGTGAGAATTTATTCTCTGCA
6710805 TGCACTCGTATAATATGAACTTTCTACTTGAGGTCTGTCTCTATTAAGCGGGGTTAAACATTATG
1 TGCACTCGTATAATATGAACTTTCTACTTGAGGTCTGTCTCTATTAAGCGGGGTTAAACATTATG
6710870 TTTTTGTGAGAATTTATTCTCTGCA
66 TTTTTGTGAGAATTTATTCTCTGCA
6710895 TG
1 TG
6710897 AAAACTAGCA
Statistics
Matches: 91, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
89 83 0.91
90 8 0.09
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.41
Consensus pattern (90 bp):
TGCACTCGTATAATATGAACTTTCTACTTGAGGTCTGTCTCTATTAAGCGGGGTTAAACATTATG
TTTTTGTGAGAATTTATTCTCTGCA
Found at i:6714819 original size:56 final size:56
Alignment explanation
Indices: 6714752--6714863 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
6714742 TAGTCGTATA
6714752 CATGTTCCAATACTAGCATACAAATGATAAATCCACCCAAAATCAATTCTCAAGTC
1 CATGTTCCAATACTAGCATACAAATGATAAATCCACCCAAAATCAATTCTCAAGTC
6714808 CATGTTCCAATACTAGCATACAAATGATAAATCCACCCAAAATCAATTCTCAAGTC
1 CATGTTCCAATACTAGCATACAAATGATAAATCCACCCAAAATCAATTCTCAAGTC
6714864 GGTAACATTC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.41, C:0.27, G:0.07, T:0.25
Consensus pattern (56 bp):
CATGTTCCAATACTAGCATACAAATGATAAATCCACCCAAAATCAATTCTCAAGTC
Found at i:6719466 original size:4 final size:4
Alignment explanation
Indices: 6719457--6719487 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
6719447 CAATGCATGT
6719457 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA
6719488 CATAGTTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:6719954 original size:2 final size:2
Alignment explanation
Indices: 6719949--6719973 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6719939 TTTTAATGAT
6719949 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
6719974 GAAATCAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6720060 original size:82 final size:81
Alignment explanation
Indices: 6719952--6720128 Score: 327
Period size: 82 Copynumber: 2.2 Consensus size: 81
6719942 TAATGATTAT
6719952 ATATATATATATATATATATATGAAATCAATAAAAATAATTTAATATTCAAATTATAATATATAT
1 ATATATATATATATATATATATGAAATCAATAAAAATAATTTAATATTCAAATTATAATATATAT
*
6720017 TATATTATAACTAGTG
66 TATATTATAACTAATG
*
6720033 ATAATATATATATATATATATATGAAATCATTAAAAATAATTTAATATTCAAATTATAATATATA
1 AT-ATATATATATATATATATATGAAATCAATAAAAATAATTTAATATTCAAATTATAATATATA
6720098 TTATATTATAACTAATG
65 TTATATTATAACTAATG
6720115 ATATATATATATAT
1 ATATATATATATAT
6720129 TCAAATTATA
Statistics
Matches: 93, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
81 14 0.15
82 79 0.85
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (81 bp):
ATATATATATATATATATATATGAAATCAATAAAAATAATTTAATATTCAAATTATAATATATAT
TATATTATAACTAATG
Found at i:6730732 original size:21 final size:21
Alignment explanation
Indices: 6730706--6730819 Score: 85
Period size: 21 Copynumber: 5.4 Consensus size: 21
6730696 GGTTTGCATA
6730706 TTTTTAAATAATTTAATTTTC
1 TTTTTAAATAATTTAATTTTC
*
6730727 TTTTT-AAT--TTTATATCTTGTA
1 TTTTTAAATAATTTA-AT-TT-TC
* *
6730748 TTTTTAAATAACTGAATTTTC
1 TTTTTAAATAATTTAATTTTC
* *
6730769 TTTTT--ATATTTATATATTTTA
1 TTTTTAAATAATT-TA-ATTTTC
* *
6730790 TTTTTACATAATTGAATTTTC
1 TTTTTAAATAATTTAATTTTC
6730811 TTTTTAAAT
1 TTTTTAAAT
6730820 TTATATTTTG
Statistics
Matches: 71, Mismatches: 12, Indels: 20
0.69 0.12 0.19
Matches are distributed among these distances:
18 4 0.06
19 6 0.08
20 6 0.08
21 40 0.56
22 6 0.08
23 7 0.10
24 2 0.03
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (21 bp):
TTTTTAAATAATTTAATTTTC
Found at i:6730751 original size:42 final size:41
Alignment explanation
Indices: 6730704--6730838 Score: 182
Period size: 42 Copynumber: 3.2 Consensus size: 41
6730694 TTGGTTTGCA
*
6730704 TATTTTTAAATAATTTAATTTTCTTTTTAATTTTATATCTTG
1 TATTTTTAAATAATTGAATTTTCTTTTTAATTTTATAT-TTG
*
6730746 TATTTTTAAATAACTGAATTTTCTTTTTATATTTATATATTT-
1 TATTTTTAAATAATTGAATTTTCTTTTTA-ATTT-TATATTTG
* *
6730788 TATTTTTACATAATTGAATTTTCTTTTTAAATTTATATTTTG
1 TATTTTTAAATAATTGAATTTTCTTTTTAATTTTATA-TTTG
*
6730830 CATTTTTAA
1 TATTTTTAA
6730839 TTTAAGAAAA
Statistics
Matches: 82, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
40 4 0.05
41 6 0.07
42 61 0.74
43 6 0.07
44 5 0.06
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (41 bp):
TATTTTTAAATAATTGAATTTTCTTTTTAATTTTATATTTG
Found at i:6740129 original size:24 final size:24
Alignment explanation
Indices: 6740102--6740151 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
6740092 TGGTGGTTGA
*
6740102 TTTAATGGT-TGTTTGAACTTTATT
1 TTTAATGGTATATTT-AACTTTATT
*
6740126 TTTAATGGTATATTTAAGTTTATT
1 TTTAATGGTATATTTAACTTTATT
6740150 TT
1 TT
6740152 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.24, C:0.02, G:0.14, T:0.60
Consensus pattern (24 bp):
TTTAATGGTATATTTAACTTTATT
Found at i:6744137 original size:26 final size:23
Alignment explanation
Indices: 6744112--6744159 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
6744102 ATCAAGTATA
* *
6744112 ATAACATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
*
6744135 ATAATGTAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
6744158 AT
1 AT
6744160 TGACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:6747858 original size:177 final size:182
Alignment explanation
Indices: 6747463--6748208 Score: 1027
Period size: 177 Copynumber: 4.1 Consensus size: 182
6747453 TTAAAATTAG
* *
6747463 CGACACAATATTAGAAAGTGTCGATATAGGTTATAGACCTATTCGCTCATAAAACC-GTATA--T
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
6747525 ATACCGG-TATATTACAAAATTATC---T--ATTATAA-T-TGGGTT-CGATGTGT-AATGTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
* *
6747580 CACCTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAATAC
131 CACTTTTTGACAAGG-ATCGACACATTTTTCTTCCATTCTGGACATAAAGTAC
6747633 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
6747698 ATACC-G-TATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
6747761 CACTTTTTGACAAGG-TCGACACATTTTTCTTCCATTCTGGACATAAAGTAC
131 CACTTTTTGACAAGGATCGACACATTTTTCTTCCATTCTGGACATAAAGTAC
*
6747812 CGACAC-A-ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAATCGGTATATTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
6747875 ATACCGGTTATATT--AAAATTATCTATTACATTATAATTCT-GGTTCCGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
*
6747937 CACTTTTTGATAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTAC
131 CACTTTTTGACAAGG-ATCGACACATTTTTCTTCCATTCTGGACATAAAGTAC
6747990 CGACACAATATTAAAAAGTGTCGATATAGGTTGTGTCGATATAGGTTGTAGACCTATTCGCTCAT
1 CGACACAATATT---AA------A-A-A----GTGTCGATATAGGTTGTAGACCTATTCGCTCAT
* * *
6748055 AAAACCGGTATATTTATACCGATTATATTACAAAATTATCTATTACATTA-AGTTATGGGTTCCG
51 AAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCG
* * *
6748119 ATGTTTTTTCAA--TCGACACTTTTTGAAAAGGTATCGACACATTTTTCTTCCATTCTGGACATA
116 ATG---TGTAAATGTCGACACTTTTTGACAAGG-ATCGACACATTTTTCTTCCATTCTGGACATA
6748182 AAGTAC
177 AAGTAC
6748188 CGACACAATATTAAAAAGTGT
1 CGACACAATATTAAAAAGTGT
6748209 GAAAACTTTG
Statistics
Matches: 524, Mismatches: 13, Indels: 65
0.87 0.02 0.11
Matches are distributed among these distances:
170 54 0.10
171 5 0.01
172 18 0.03
173 6 0.01
175 1 0.00
176 36 0.07
177 93 0.18
178 45 0.09
179 54 0.10
180 11 0.02
181 22 0.04
183 6 0.01
187 1 0.00
188 1 0.00
189 2 0.00
190 1 0.00
191 1 0.00
195 62 0.12
196 4 0.01
197 29 0.06
198 68 0.13
200 4 0.01
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (182 bp):
CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
CACTTTTTGACAAGGATCGACACATTTTTCTTCCATTCTGGACATAAAGTAC
Found at i:6748027 original size:15 final size:15
Alignment explanation
Indices: 6748007--6748038 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
6747997 ATATTAAAAA
6748007 GTGTCGATATAGGTT
1 GTGTCGATATAGGTT
6748022 GTGTCGATATAGGTT
1 GTGTCGATATAGGTT
6748037 GT
1 GT
6748039 AGACCTATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.06, G:0.34, T:0.41
Consensus pattern (15 bp):
GTGTCGATATAGGTT
Found at i:6748192 original size:198 final size:194
Alignment explanation
Indices: 6747827--6748208 Score: 624
Period size: 198 Copynumber: 1.9 Consensus size: 194
6747817 CAATTAAAAA
* *
6747827 GTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAATCGGTATATTTATACCGGTTATATTAAA
1 GTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGATTATATTAAA
* *
6747892 ATTATCTATTACATTATAATTCTGGTTCCGATGTGTAAATGTCGACACTTTTTGATAAGGTATCG
66 ATTATCTATTACATTATAATTATGGTTCCGATGTGTAAA-GTCGACACTTTTTGAAAAGGTATCG
6747957 ACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTT
130 ACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTT
6748022 GTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGATTATATTACA
1 GTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGATTATATT--A
* * *
6748087 AAATTATCTATTACATTA-AGTTATGGGTTCCGATGTTTTTTCAA-TCGACACTTTTTGAAAAGG
64 AAATTATCTATTACATTATAATTAT-GGTTCCGATG---TGTAAAGTCGACACTTTTTGAAAAGG
6748150 TATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGT
125 TATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGT
6748209 GAAAACTTTG
Statistics
Matches: 174, Mismatches: 7, Indels: 9
0.92 0.04 0.05
Matches are distributed among these distances:
195 60 0.34
196 4 0.02
197 29 0.17
198 77 0.44
200 4 0.02
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (194 bp):
GTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGATTATATTAAA
ATTATCTATTACATTATAATTATGGTTCCGATGTGTAAAGTCGACACTTTTTGAAAAGGTATCGA
CACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTT
Found at i:6749411 original size:3 final size:3
Alignment explanation
Indices: 6749403--6749450 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
6749393 ACTTGTTTGG
* * * *
6749403 ATC ATC ATC ATC ATC ATC ATC ATC GTC ATC TTC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
6749451 GTCAGCTTCA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.25, C:0.33, G:0.04, T:0.38
Consensus pattern (3 bp):
ATC
Found at i:6749451 original size:12 final size:12
Alignment explanation
Indices: 6749404--6749462 Score: 82
Period size: 12 Copynumber: 4.9 Consensus size: 12
6749394 CTTGTTTGGA
* *
6749404 TCATCATCATCA
1 TCATCTTCATCG
*
6749416 TCATCATCATCG
1 TCATCTTCATCG
6749428 TCATCTTCATCG
1 TCATCTTCATCG
6749440 TCATCTTCATCG
1 TCATCTTCATCG
*
6749452 TCAGCTTCATC
1 TCATCTTCATC
6749463 TTCACTGACC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 44 1.00
ACGTcount: A:0.22, C:0.34, G:0.07, T:0.37
Consensus pattern (12 bp):
TCATCTTCATCG
Found at i:6749465 original size:6 final size:6
Alignment explanation
Indices: 6749404--6749466 Score: 63
Period size: 6 Copynumber: 10.5 Consensus size: 6
6749394 CTTGTTTGGA
* * * * * *
6749404 TCATCA TCATCA TCATCA TCATCG TCATCT TCATCG TCATCT TCATCG
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
*
6749452 TCAGCT TCATCT TCA
1 TCATCT TCATCT TCA
6749467 CTGACCGTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.22, C:0.33, G:0.06, T:0.38
Consensus pattern (6 bp):
TCATCT
Found at i:6751153 original size:18 final size:18
Alignment explanation
Indices: 6751126--6751161 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
6751116 GGGTTCGATG
*
6751126 TTTATGGGATCGACACTT
1 TTTATAGGATCGACACTT
6751144 TTTATAGGATCGACACTT
1 TTTATAGGATCGACACTT
6751162 ATTGTTGTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (18 bp):
TTTATAGGATCGACACTT
Found at i:6751463 original size:197 final size:196
Alignment explanation
Indices: 6750863--6751685 Score: 1188
Period size: 197 Copynumber: 4.2 Consensus size: 196
6750853 AATTCTCCCA
* * *
6750863 TAAAACCGGATATACTTATACCGGTTAGATTGAAAAATTACCTAATACATTATACTTTTGGGTTT
1 TAAAACCGG-TATACTTGTACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTT
* * *
6750928 CGATGTTTATGGGATCGACACTTTTTATATATGGATCGA-ACTTATGGTTGCATCCTGTTTGCCA
65 CGATGTTTATCGGATCGACAC-TTTTATATATGGATCGACACTTATTGTTGCACCCTGTTTGCCA
6750992 TTCATTCTGGACCAAAAATATCGACACAAACTACAAAAGTGTCGACACATTATTTAGACCT-TCT
129 TTCATTCTGGACCAAAAATATCGACACAAACTACAAAAGTGTCGACACATTATTTAGACCTAT-T
*
6751056 CTCA
193 CTCT
6751060 TAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACCTATTACA-T-TACTTATGGG-TTC
1 TAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTC
* *
6751122 GATGTTTATGGGATCGACACTTTT-TATA-GGATCGACACTTATTGTTGTACCCCTG-TTGCCAT
66 GATGTTTATCGGATCGACACTTTTATATATGGATCGACACTTATTGTTGCA-CCCTGTTTGCCAT
*
6751184 TCATT-TGGACC-AAAATATCGACACAAACTACAAAAGTGGTCGACACATTATTTAGACATATTC
130 TCATTCTGGACCAAAAATATCGACACAAACTACAAAAGT-GTCGACACATTATTTAGACCTATTC
6751247 TCT
194 TCT
* *
6751250 CATAAAACCGGTATACTTGTACCGGTTAGA-TGAAAAATAACCTATTCCATTATACTTATGGGTT
1 --TAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTT
* *
6751314 TCGATGTTTATCGGATCGACACTTTTTATATATAGATCGACACTTTATTATTGCACCCTG-TTGC
64 TCGATGTTTATCGGATCGACAC-TTTTATATATGGATCGACAC-TTATTGTTGCACCCTGTTTGC
* *
6751378 CATTCATTCTGGACCAAAAAATATCGACACGAACTACAAAAGTGTCGATACATTATTTAGACCTA
127 CATTCATTCTGGACC-AAAAATATCGACACAAACTACAAAAGTGTCGACACATTATTTAGACCTA
6751443 -TCTCAT
191 TTCTC-T
* * * *
6751449 TAAAAGCGGTATACTTGTA-CGATTAGATTGAAAAAGTACCTATTACATTATACTTTTGGGTTTC
1 TAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTC
6751513 GATGTTTATCGGATCGACACTTTTATATATGGATCGACACTTTATTGTTGCACCCTGTTTGCCAT
66 GATGTTTATCGGATCGACACTTTTATATATGGATCGACAC-TTATTGTTGCACCCTGTTTGCCAT
* * *
6751578 CCATTCTGGACCAAAAATATCGACACGAACTACAAAAAGTGTCGATACATTATTTAGACCTATTC
130 TCATTCTGGACCAAAAATATCGACACAAACTAC-AAAAGTGTCGACACATTATTTAGACCTATTC
6751643 TCT
194 TCT
* * *
6751646 CATAAACTGGTATACTTGTACCGATTAGATTGAAAAATTA
1 TA-AAACCGGTATACTTGTACCGGTTAGATTGAAAAATTA
6751686 TGTTTTCCAT
Statistics
Matches: 573, Mismatches: 30, Indels: 44
0.89 0.05 0.07
Matches are distributed among these distances:
189 26 0.05
190 37 0.06
191 45 0.08
192 37 0.06
193 33 0.06
194 31 0.05
195 5 0.01
196 104 0.18
197 153 0.27
198 38 0.07
199 39 0.07
200 25 0.04
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (196 bp):
TAAAACCGGTATACTTGTACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTC
GATGTTTATCGGATCGACACTTTTATATATGGATCGACACTTATTGTTGCACCCTGTTTGCCATT
CATTCTGGACCAAAAATATCGACACAAACTACAAAAGTGTCGACACATTATTTAGACCTATTCTC
T
Found at i:6751940 original size:18 final size:18
Alignment explanation
Indices: 6751917--6751977 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
6751907 TCTCATTCAT
*
6751917 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
6751935 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
6751954 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
6751973 AATTA
1 AATTA
6751978 ACCCTACATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:6751953 original size:19 final size:19
Alignment explanation
Indices: 6751929--6751977 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
6751919 TTATATTCAC
6751929 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
6751948 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
6751967 ATACAAAATTA
1 ATACAAAATTA
6751978 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:6753799 original size:33 final size:33
Alignment explanation
Indices: 6753762--6753827 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
6753752 CATCTTAATA
*
6753762 TCACCCCTTAACACCTCAAATTCTTTCACCACT
1 TCACCCCTCAACACCTCAAATTCTTTCACCACT
* * *
6753795 TCACCCCTCAACTCCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAAATTCTTTCACCACT
6753828 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.23, C:0.45, G:0.00, T:0.32
Consensus pattern (33 bp):
TCACCCCTCAACACCTCAAATTCTTTCACCACT
Found at i:6753910 original size:21 final size:21
Alignment explanation
Indices: 6753859--6753917 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
6753849 ACCCTTATGC
* *
6753859 CTATCAAGTGTATCTTCGACT
1 CTATCAAGTTTCTCTTCGACT
* *
6753880 CTCTCAAGTTTCTCTTTGACT
1 CTATCAAGTTTCTCTTCGACT
6753901 CTATCAAGTTTCTCTTC
1 CTATCAAGTTTCTCTTC
6753918 TCGATTGTCT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.19, C:0.27, G:0.10, T:0.44
Consensus pattern (21 bp):
CTATCAAGTTTCTCTTCGACT
Found at i:6756183 original size:20 final size:19
Alignment explanation
Indices: 6756128--6756174 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
6756118 TCCGGTATCG
6756128 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
6756147 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
6756168 TTTTACC
1 TTTTACC
6756175 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:6756355 original size:20 final size:19
Alignment explanation
Indices: 6756309--6756355 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
6756299 TCCGGTAACG
6756309 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
6756328 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
6756349 TTTTACC
1 TTTTACC
6756356 TGGCATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:6756538 original size:183 final size:181
Alignment explanation
Indices: 6756095--6756568 Score: 714
Period size: 181 Copynumber: 2.6 Consensus size: 181
6756085 CGTACTTACG
*
6756095 AAAGTATCGACACTTTCAATATATCCGGTATCGTTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
6756160 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTTAAAGTATCGACACATTAT
* * *
6756225 AGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCATTATAT
131 AGGAGCTAAAACTACTTCTCTTTTAAATTCACAAAGTATCGATCATTATAT
6756276 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
** *
6756341 TATCATATTTTTACCTGGCATATCGTTTTGGATCGATACATTTTTTTAAAAGTATCGACACTTTA
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTT-AAAGTATCGACACATTA
* ** * *
6756406 TATGATTTAAAACTACTTCTCTTTTAAATTCACGAAGTATCGATCCTTATATT
130 TAGGAGCTAAAACTACTTCTCTTTTAAATTCACAAAGTATCGATCATTATA-T
* * * * **
6756459 AAAGTACCGACACTTTAAATGTATCCGGTAGCGTTTTACCGGTTTTATCATTTCAATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * * *
6756524 TGTCATAGTTTTACCTGTTATATTGTTTTGGATCGACACATTTTT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
6756569 AATTTGGATC
Statistics
Matches: 265, Mismatches: 26, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
181 107 0.40
182 59 0.22
183 99 0.37
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (181 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTTAAAGTATCGACACATTAT
AGGAGCTAAAACTACTTCTCTTTTAAATTCACAAAGTATCGATCATTATAT
Found at i:6756719 original size:37 final size:37
Alignment explanation
Indices: 6756668--6756743 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 37
6756658 TTAGTCAACA
* * *
6756668 TTTCTGATAGCGCTAAACCGAATTTATTAAATATCTT
1 TTTCTAATAACGCTAAACCAAATTTATTAAATATCTT
* *
6756705 TTTCTAATAACGCTAAATCAAATTTATTAAATATGTT
1 TTTCTAATAACGCTAAACCAAATTTATTAAATATCTT
6756742 TT
1 TT
6756744 AATGTATCCG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.43
Consensus pattern (37 bp):
TTTCTAATAACGCTAAACCAAATTTATTAAATATCTT
Found at i:6759996 original size:32 final size:34
Alignment explanation
Indices: 6759938--6760022 Score: 152
Period size: 34 Copynumber: 2.5 Consensus size: 34
6759928 GCCCCGATTA
*
6759938 TATATATATAATATTTTATATTTTTTTTATTAAT
1 TATATATATAATATTTTATATTTTTTATATTAAT
6759972 TATATATATAATATTTTATATTTTTTATATTAAT
1 TATATATATAATATTTTATATTTTTTATATTAAT
*
6760006 TATATATAAAATATTTT
1 TATATATATAATATTTT
6760023 TGAGTTCAGG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 49 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (34 bp):
TATATATATAATATTTTATATTTTTTATATTAAT
Found at i:6761857 original size:27 final size:28
Alignment explanation
Indices: 6761827--6761881 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
6761817 AAAGTTTTGG
*
6761827 AGAGTCTAAATTAT-TTTTTTAAATTTA
1 AGAGTCTAAATTATACTTTTTAAATTTA
6761854 AGAGTCTAAATTATAACTTTTTAAATTT
1 AGAGTCTAAATTAT-ACTTTTTAAATTT
6761882 TGGGATGTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 14 0.56
29 11 0.44
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.49
Consensus pattern (28 bp):
AGAGTCTAAATTATACTTTTTAAATTTA
Found at i:6762277 original size:15 final size:14
Alignment explanation
Indices: 6762231--6762278 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 14
6762221 TCGGGCCGAA
*
6762231 TATATATATTTAAAT
1 TATATATA-TAAAAT
*
6762246 TAAATATATAAATAT
1 TATATATATAAA-AT
6762261 TATATATATAATAAT
1 TATATATATAA-AAT
6762276 TAT
1 TAT
6762279 TTTTAATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 3 0.11
15 24 0.86
16 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TATATATATAAAAT
Found at i:6762615 original size:2 final size:2
Alignment explanation
Indices: 6762608--6762632 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6762598 CCAACCCGAT
6762608 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
6762633 TACACTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6762690 original size:21 final size:21
Alignment explanation
Indices: 6762664--6762764 Score: 86
Period size: 21 Copynumber: 4.9 Consensus size: 21
6762654 TCTATTTATT
6762664 ATTATTAAAATATATTATTTA
1 ATTATTAAAATATATTATTTA
*
6762685 ATTATTAAAATATA-AATATT-
1 ATTATTAAAATATATTAT-TTA
*
6762705 ATTA-TGAAATATATTAATTTA
1 ATTATTAAAATATATT-ATTTA
* * **
6762726 ATCATTTAAAATATAATAAATA
1 ATTA-TTAAAATATATTATTTA
6762748 ATTA-T-AAATATATTATT
1 ATTATTAAAATATATTATT
6762765 ATAAAATATG
Statistics
Matches: 62, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
19 17 0.27
20 9 0.15
21 21 0.34
22 6 0.10
23 9 0.15
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (21 bp):
ATTATTAAAATATATTATTTA
Found at i:6762705 original size:41 final size:41
Alignment explanation
Indices: 6762660--6762764 Score: 126
Period size: 41 Copynumber: 2.6 Consensus size: 41
6762650 GAATTCTATT
*
6762660 TATTATTATTAAAATATATTATTTAATTA-TTAAAATATAAA
1 TATTATTATTAAAATATATTATTTAATCATTTAAAATAT-AA
*
6762701 TATTATTA-TGAAATATATTAATTTAATCATTTAAAATATAA
1 TATTATTATTAAAATATATT-ATTTAATCATTTAAAATATAA
* *
6762742 TA-AATAATTATAAATATATTATT
1 TATTATTATTA-AAATATATTATT
6762765 ATAAAATATG
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
40 13 0.24
41 24 0.44
42 18 0.33
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (41 bp):
TATTATTATTAAAATATATTATTTAATCATTTAAAATATAA
Found at i:6762757 original size:42 final size:40
Alignment explanation
Indices: 6762667--6762762 Score: 124
Period size: 42 Copynumber: 2.4 Consensus size: 40
6762657 ATTTATTATT
* * *
6762667 ATTA-AAATATATT-ATTTAATTATTAAAATATAAATATT
1 ATTATAAATATATTAATTTAATCATTAAAATATAAAAATA
6762705 ATTATGAAATATATTAATTTAATCATTTAAAATATAATAAATA
1 ATTAT-AAATATATTAATTTAATCA-TTAAAATATAA-AAATA
6762748 ATTATAAATATATTA
1 ATTATAAATATATTA
6762763 TTATAAAATA
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
38 4 0.08
40 9 0.18
41 8 0.16
42 21 0.42
43 8 0.16
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (40 bp):
ATTATAAATATATTAATTTAATCATTAAAATATAAAAATA
Done.